[med-svn] [abyss] 02/02: abyss (1.3.6-1) unstable; urgency=low
Charles Plessy
plessy at alioth.debian.org
Sun Sep 8 05:50:15 UTC 2013
This is an automated email from the git hooks/post-receive script.
plessy pushed a commit to branch logs/debian/unstable/amd64
in repository abyss.
commit 63893a47a698d17dac28020bb76ce369883d1881
Author: Charles Plessy <plessy at debian.org>
Date: Sun Sep 8 14:49:41 2013 +0900
abyss (1.3.6-1) unstable; urgency=low
* Team upload (Closes: #722072).
e05ee57 Imported Upstream version 1.3.5
b391f1f Imported Upstream version 1.3.6 (Closes: #702440)
7edc28b Signal the use of git-buildpackage with this configuration file.
a3beaac Normalised source package control file with config-model-edit.
dd86394 Conforms with Policy version 3.9.4.
71d42ad Normalised VCS URLs.
---
changes | 59 +++
dsc | 45 ++
log | 1617 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
upload | 6 +
4 files changed, 1727 insertions(+)
diff --git a/changes b/changes
new file mode 100644
index 0000000..cdb840c
--- /dev/null
+++ b/changes
@@ -0,0 +1,59 @@
+-----BEGIN PGP SIGNED MESSAGE-----
+Hash: SHA256
+
+Format: 1.8
+Date: Sun, 08 Sep 2013 11:36:44 +0900
+Source: abyss
+Binary: abyss
+Architecture: source amd64
+Version: 1.3.6-1
+Distribution: unstable
+Urgency: low
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ abyss - de novo, parallel, sequence assembler for short reads
+Closes: 702440 722072
+Changes:
+ abyss (1.3.6-1) unstable; urgency=low
+ .
+ * Team upload (Closes: #722072).
+ e05ee57 Imported Upstream version 1.3.5
+ b391f1f Imported Upstream version 1.3.6 (Closes: #702440)
+ 7edc28b Signal the use of git-buildpackage with this configuration file.
+ a3beaac Normalised source package control file with config-model-edit.
+ dd86394 Conforms with Policy version 3.9.4.
+ 71d42ad Normalised VCS URLs.
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+Format: 3.0 (quilt)
+Source: abyss
+Binary: abyss
+Architecture: any
+Version: 1.3.6-1
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: Shaun Jackman <sjackman at debian.org>, Andreas Tille <tille at debian.org>
+Homepage: http://www.bcgsc.ca/platform/bioinfo/software/abyss
+Standards-Version: 3.9.4
+Vcs-Browser: http://anonscm.debian.org/gitweb/?p=debian-med/abyss.git
+Vcs-Git: git://anonscm.debian.org/debian-med/abyss.git
+Build-Depends: debhelper (>= 9), autotools-dev, libboost-graph-dev, libopenmpi-dev, libsparsehash-dev
+Package-List:
+ abyss deb non-free/science optional
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diff --git a/log b/log
new file mode 100644
index 0000000..9ae72d7
--- /dev/null
+++ b/log
@@ -0,0 +1,1617 @@
+sbuild (Debian sbuild) 0.64.0 (17 May 2013) on aqwa.igloo
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ abyss 1.3.6-1 (amd64) 08 sept. 2013 12:00 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: abyss
+Version: 1.3.6-1
+Source Version: 1.3.6-1
+Distribution: unstable
+Machine Architecture: amd64
+Host Architecture: amd64
+Build Architecture: amd64
+
+I: NOTICE: Log filtering will replace 'build/abyss-WxnXWX/abyss-1.3.6' with '«PKGBUILDDIR»'
+I: NOTICE: Log filtering will replace 'build/abyss-WxnXWX' with '«BUILDDIR»'
+I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/unstable-amd64-sbuild-f785417c-73a3-4f7c-8ba5-fc6d32de4e0d' with '«CHROOT»'
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Update chroot │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Hit http://ftp.jp.debian.org unstable InRelease
+Hit http://ftp.jp.debian.org unstable/main Sources/DiffIndex
+Hit http://ftp.jp.debian.org unstable/main amd64 Packages/DiffIndex
+Hit http://ftp.jp.debian.org unstable/main Translation-en/DiffIndex
+Reading package lists...
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Local sources
+─────────────
+
+abyss_1.3.6-1.dsc exists in .; copying to chroot
+
+Check arch
+──────────
+
+Merged Build-Depends: build-essential, fakeroot
+Filtered Build-Depends: build-essential, fakeroot
+dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-A8GyjZ/apt_archive/sbuild-build-depends-core-dummy.deb'.
+OK
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install core build dependencies (apt-based resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Installing build dependencies
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following NEW packages will be installed:
+ sbuild-build-depends-core-dummy
+debconf: delaying package configuration, since apt-utils is not installed
+0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
+Need to get 0 B/772 B of archives.
+After this operation, 0 B of additional disk space will be used.
+Selecting previously unselected package sbuild-build-depends-core-dummy.
+(Reading database ... 11122 files and directories currently installed.)
+Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ...
+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, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit, sysvinit-utils, tar, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 9), autotools-dev, libboost-graph-dev, libopenmpi-dev, libsparsehash-dev
+Filtered Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit, sysvinit-utils, tar, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 9), autotools-dev, libboost-graph-dev, libopenmpi-dev, libsparsehash-dev
+dpkg-deb: building package `sbuild-build-depends-abyss-dummy' in `/«BUILDDIR»/resolver-YdxCmW/apt_archive/sbuild-build-depends-abyss-dummy.deb'.
+OK
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install abyss build dependencies (apt-based resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Installing build dependencies
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ adduser autotools-dev bsdmainutils debhelper file gettext gettext-base
+ groff-base intltool-debian libasprintf0c2 libboost-graph-dev
+ libboost-graph1.54-dev libboost-graph1.54.0 libboost-regex1.54.0
+ libboost-serialization1.54-dev libboost-serialization1.54.0
+ libboost-test1.54-dev libboost-test1.54.0 libboost1.54-dev libcr0 libcroco3
+ libffi6 libgfortran3 libglib2.0-0 libhwloc-dev libhwloc5 libibverbs-dev
+ libibverbs1 libicu48 libltdl7 libmagic1 libnuma1 libopenmpi-dev
+ libopenmpi1.6 libpci-dev libpci3 libpipeline1 libsparsehash-dev libtorque2
+ libunistring0 libxml2 libxml2-dev man-db openmpi-common po-debconf
+ zlib1g-dev
+Suggested packages:
+ wamerican wordlist whois vacation dh-make gettext-doc groff graphviz
+ libboost1.54-doc libboost-atomic1.54-dev libboost-chrono1.54-dev
+ libboost-context1.54-dev libboost-coroutine.54-dev
+ libboost-date-time1.54-dev libboost-exception1.54-dev
+ libboost-filesystem1.54-dev libboost-graph-parallel1.54-dev
+ libboost-iostreams1.54-dev libboost-locale1.54-dev libboost-log.54-dev
+ libboost-math1.54-dev libboost-mpi1.54-dev libboost-mpi-python1.54-dev
+ libboost-program-options1.54-dev libboost-python1.54-dev
+ libboost-random1.54-dev libboost-regex1.54-dev libboost-signals1.54-dev
+ libboost-system1.54-dev libboost-thread1.54-dev libboost-timer1.54-dev
+ libboost-wave1.54-dev xsltproc doxygen docbook-xml docbook-xsl default-jdk
+ fop blcr-dkms libhwloc-contrib-plugins pkg-config less www-browser
+ libmail-box-perl
+Recommended packages:
+ curl wget lynx-cur autopoint libasprintf-dev libgettextpo-dev
+ libglib2.0-data shared-mime-info libhwloc-plugins xml-core
+ libmail-sendmail-perl
+The following NEW packages will be installed:
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+ groff-base intltool-debian libasprintf0c2 libboost-graph-dev
+ libboost-graph1.54-dev libboost-graph1.54.0 libboost-regex1.54.0
+ libboost-serialization1.54-dev libboost-serialization1.54.0
+ libboost-test1.54-dev libboost-test1.54.0 libboost1.54-dev libcr0 libcroco3
+ libffi6 libgfortran3 libglib2.0-0 libhwloc-dev libhwloc5 libibverbs-dev
+ libibverbs1 libicu48 libltdl7 libmagic1 libnuma1 libopenmpi-dev
+ libopenmpi1.6 libpci-dev libpci3 libpipeline1 libsparsehash-dev libtorque2
+ libunistring0 libxml2 libxml2-dev man-db openmpi-common po-debconf
+ sbuild-build-depends-abyss-dummy zlib1g-dev
+0 upgraded, 47 newly installed, 0 to remove and 0 not upgraded.
+Need to get 12.9 MB/25.3 MB of archives.
+After this operation, 177 MB of additional disk space will be used.
+Get:1 http://ftp.jp.debian.org/debian/ unstable/main libicu48 amd64 4.8.1.1-13 [4723 kB]
+Get:2 http://ftp.jp.debian.org/debian/ unstable/main autotools-dev all 20130810.1 [69.6 kB]
+Get:3 http://ftp.jp.debian.org/debian/ unstable/main libboost1.54-dev amd64 1.54.0-3 [6747 kB]
+Get:4 http://ftp.jp.debian.org/debian/ unstable/main libboost-regex1.54.0 amd64 1.54.0-3 [283 kB]
+Get:5 http://ftp.jp.debian.org/debian/ unstable/main libboost-graph1.54.0 amd64 1.54.0-3 [116 kB]
+Get:6 http://ftp.jp.debian.org/debian/ unstable/main libboost-serialization1.54.0 amd64 1.54.0-3 [145 kB]
+Get:7 http://ftp.jp.debian.org/debian/ unstable/main libboost-serialization1.54-dev amd64 1.54.0-3 [172 kB]
+Get:8 http://ftp.jp.debian.org/debian/ unstable/main libboost-test1.54.0 amd64 1.54.0-3 [197 kB]
+Get:9 http://ftp.jp.debian.org/debian/ unstable/main libboost-test1.54-dev amd64 1.54.0-3 [233 kB]
+Get:10 http://ftp.jp.debian.org/debian/ unstable/main libboost-graph1.54-dev amd64 1.54.0-3 [119 kB]
+Get:11 http://ftp.jp.debian.org/debian/ unstable/main libboost-graph-dev amd64 1.54.0.1 [2890 B]
+Get:12 http://ftp.jp.debian.org/debian/ unstable/main libsparsehash-dev all 1.10-1 [116 kB]
+debconf: delaying package configuration, since apt-utils is not installed
+Fetched 12.9 MB in 6s (2025 kB/s)
+Selecting previously unselected package libpipeline1:amd64.
+(Reading database ... 11122 files and directories currently installed.)
+Unpacking libpipeline1:amd64 (from .../libpipeline1_1.2.4-1_amd64.deb) ...
+Selecting previously unselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.22.2-3_amd64.deb) ...
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+Unpacking man-db (from .../man-db_2.6.5-2_amd64.deb) ...
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+Unpacking libmagic1:amd64 (from .../libmagic1_1%3a5.14-2_amd64.deb) ...
+Selecting previously unselected package libpci3:amd64.
+Unpacking libpci3:amd64 (from .../libpci3_1%3a3.2.0-3_amd64.deb) ...
+Selecting previously unselected package libxml2:amd64.
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+Unpacking libunistring0:amd64 (from .../libunistring0_0.9.3-5_amd64.deb) ...
+Selecting previously unselected package libnuma1.
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+Selecting previously unselected package libhwloc5:amd64.
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+Selecting previously unselected package po-debconf.
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+Unpacking libboost-test1.54-dev (from .../libboost-test1.54-dev_1.54.0-3_amd64.deb) ...
+Selecting previously unselected package libboost-graph1.54-dev.
+Unpacking libboost-graph1.54-dev (from .../libboost-graph1.54-dev_1.54.0-3_amd64.deb) ...
+Selecting previously unselected package libboost-graph-dev.
+Unpacking libboost-graph-dev (from .../libboost-graph-dev_1.54.0.1_amd64.deb) ...
+Selecting previously unselected package libcr0.
+Unpacking libcr0 (from .../libcr0_0.8.5-2_amd64.deb) ...
+Selecting previously unselected package zlib1g-dev:amd64.
+Unpacking zlib1g-dev:amd64 (from .../zlib1g-dev_1%3a1.2.8.dfsg-1_amd64.deb) ...
+Selecting previously unselected package libpci-dev.
+Unpacking libpci-dev (from .../libpci-dev_1%3a3.2.0-3_amd64.deb) ...
+Selecting previously unselected package libsparsehash-dev.
+Unpacking libsparsehash-dev (from .../libsparsehash-dev_1.10-1_all.deb) ...
+Selecting previously unselected package libtorque2.
+Unpacking libtorque2 (from .../libtorque2_2.4.16+dfsg-1_amd64.deb) ...
+Selecting previously unselected package libxml2-dev:amd64.
+Unpacking libxml2-dev:amd64 (from .../libxml2-dev_2.9.1+dfsg1-3_amd64.deb) ...
+Selecting previously unselected package libhwloc-dev:amd64.
+Unpacking libhwloc-dev:amd64 (from .../libhwloc-dev_1.7.2-1_amd64.deb) ...
+Selecting previously unselected package libibverbs1.
+Unpacking libibverbs1 (from .../libibverbs1_1.1.7-1_amd64.deb) ...
+Selecting previously unselected package libibverbs-dev.
+Unpacking libibverbs-dev (from .../libibverbs-dev_1.1.7-1_amd64.deb) ...
+Selecting previously unselected package libopenmpi1.6.
+Unpacking libopenmpi1.6 (from .../libopenmpi1.6_1.6.5-4_amd64.deb) ...
+Selecting previously unselected package openmpi-common.
+Unpacking openmpi-common (from .../openmpi-common_1.6.5-4_all.deb) ...
+Selecting previously unselected package libopenmpi-dev.
+Unpacking libopenmpi-dev (from .../libopenmpi-dev_1.6.5-4_amd64.deb) ...
+Selecting previously unselected package sbuild-build-depends-abyss-dummy.
+Unpacking sbuild-build-depends-abyss-dummy (from .../sbuild-build-depends-abyss-dummy.deb) ...
+Setting up libpipeline1:amd64 (1.2.4-1) ...
+Setting up groff-base (1.22.2-3) ...
+Setting up bsdmainutils (9.0.5) ...
+update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
+update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode
+Setting up man-db (2.6.5-2) ...
+Not building database; man-db/auto-update is not 'true'.
+Setting up libasprintf0c2:amd64 (0.18.3.1-1) ...
+Setting up libmagic1:amd64 (1:5.14-2) ...
+Setting up libpci3:amd64 (1:3.2.0-3) ...
+Setting up libxml2:amd64 (2.9.1+dfsg1-3) ...
+Setting up libffi6:amd64 (3.0.13-4) ...
+Setting up libglib2.0-0:amd64 (2.36.4-1) ...
+No schema files found: doing nothing.
+Setting up libcroco3:amd64 (0.6.8-2) ...
+Setting up libgfortran3:amd64 (4.8.1-10) ...
+Setting up libicu48:amd64 (4.8.1.1-13) ...
+Setting up libltdl7:amd64 (2.4.2-1.3) ...
+Setting up libunistring0:amd64 (0.9.3-5) ...
+Setting up libnuma1 (2.0.8-3) ...
+Setting up libhwloc5:amd64 (1.7.2-1) ...
+Setting up adduser (3.113+nmu3) ...
+Setting up file (1:5.14-2) ...
+Setting up gettext-base (0.18.3.1-1) ...
+Setting up autotools-dev (20130810.1) ...
+Setting up gettext (0.18.3.1-1) ...
+Setting up intltool-debian (0.35.0+20060710.1) ...
+Setting up po-debconf (1.0.16+nmu2) ...
+Setting up debhelper (9.20130720) ...
+Setting up libboost1.54-dev (1.54.0-3) ...
+Setting up libboost-regex1.54.0 (1.54.0-3) ...
+Setting up libboost-graph1.54.0 (1.54.0-3) ...
+Setting up libboost-serialization1.54.0 (1.54.0-3) ...
+Setting up libboost-serialization1.54-dev (1.54.0-3) ...
+Setting up libboost-test1.54.0 (1.54.0-3) ...
+Setting up libboost-test1.54-dev (1.54.0-3) ...
+Setting up libboost-graph1.54-dev (1.54.0-3) ...
+Setting up libboost-graph-dev (1.54.0.1) ...
+Setting up libcr0 (0.8.5-2) ...
+Setting up zlib1g-dev:amd64 (1:1.2.8.dfsg-1) ...
+Setting up libpci-dev (1:3.2.0-3) ...
+Setting up libsparsehash-dev (1.10-1) ...
+Setting up libtorque2 (2.4.16+dfsg-1) ...
+Setting up libxml2-dev:amd64 (2.9.1+dfsg1-3) ...
+Setting up libhwloc-dev:amd64 (1.7.2-1) ...
+Setting up libibverbs1 (1.1.7-1) ...
+Setting up libibverbs-dev (1.1.7-1) ...
+Setting up libopenmpi1.6 (1.6.5-4) ...
+Setting up openmpi-common (1.6.5-4) ...
+Setting up libopenmpi-dev (1.6.5-4) ...
+update-alternatives: using /usr/lib/openmpi/include to provide /usr/include/mpi (mpi) in auto mode
+Setting up sbuild-build-depends-abyss-dummy (0.invalid.0) ...
+Processing triggers for libc-bin ...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build environment │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Kernel: Linux 3.10-1-amd64 amd64 (x86_64)
+Toolchain package versions: binutils_2.23.52.20130828-1 dpkg-dev_1.17.1 g++-4.8_4.8.1-10 gcc-4.8_4.8.1-10 libc6-dev_2.17-92+b1 libstdc++-4.8-dev_4.8.1-10 libstdc++6_4.8.1-10 linux-libc-dev_3.10.7-1
+Package versions: adduser_3.113+nmu3 apt_0.9.11.2 autotools-dev_20130810.1 base-files_7.2 base-passwd_3.5.28 bash_4.2+dfsg-1 binutils_2.23.52.20130828-1 bsdmainutils_9.0.5 bsdutils_1:2.20.1-5.5 build-essential_11.6 bzip2_1.0.6-5 coreutils_8.21-1 cpp_4:4.8.1-3 cpp-4.8_4.8.1-10 dash_0.5.7-3 debconf_1.5.51 debconf-i18n_1.5.51 debfoster_2.7-1.2 debhelper_9.20130720 debian-archive-keyring_2012.4 debianutils_4.4 diffutils_1:3.3-1 dpkg_1.17.1 dpkg-dev_1.17.1 e2fslibs_1.42.8-1 e2fsprogs_1.42.8-1 [...]
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+dpkg-source: warning: extracting unsigned source package (abyss_1.3.6-1.dsc)
+dpkg-source: info: extracting abyss in abyss-1.3.6
+dpkg-source: info: unpacking abyss_1.3.6.orig.tar.gz
+dpkg-source: info: unpacking abyss_1.3.6-1.debian.tar.gz
+dpkg-source: info: applying abyss-pe
+dpkg-source: info: applying gcc4.8.patch
+
+Check disc space
+────────────────
+
+Sufficient free space for build
+
+User Environment
+────────────────
+
+HOME=/sbuild-nonexistent
+LOGNAME=charles
+PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
+SCHROOT_ALIAS_NAME=unstable-amd64-sbuild
+SCHROOT_CHROOT_NAME=unstable-amd64-sbuild
+SCHROOT_COMMAND=env
+SCHROOT_GID=1000
+SCHROOT_GROUP=charles
+SCHROOT_SESSION_ID=unstable-amd64-sbuild-f785417c-73a3-4f7c-8ba5-fc6d32de4e0d
+SCHROOT_UID=1000
+SCHROOT_USER=charles
+SHELL=/bin/sh
+TERM=xterm
+USER=charles
+USERNAME=charles
+XDG_RUNTIME_DIR=/run/user/charles
+XDG_SEAT=seat0
+XDG_SESSION_ID=2
+XDG_VTNR=7
+
+dpkg-buildpackage
+─────────────────
+
+dpkg-buildpackage: source package abyss
+dpkg-buildpackage: source version 1.3.6-1
+dpkg-buildpackage: source distribution unstable
+dpkg-buildpackage: source changed by Charles Plessy <plessy at debian.org>
+ dpkg-source --before-build abyss-1.3.6
+dpkg-buildpackage: host architecture amd64
+ fakeroot debian/rules clean
+dh clean
+ dh_testdir
+ dh_auto_clean
+ dh_clean
+ dpkg-source -b abyss-1.3.6
+dpkg-source: info: using source format `3.0 (quilt)'
+dpkg-source: info: building abyss using existing ./abyss_1.3.6.orig.tar.gz
+dpkg-source: info: building abyss in abyss_1.3.6-1.debian.tar.gz
+dpkg-source: info: building abyss in abyss_1.3.6-1.dsc
+ debian/rules build
+dh build
+ dh_testdir
+ debian/rules override_dh_auto_configure
+make[1]: Entering directory `/«PKGBUILDDIR»'
+dh_auto_configure -- --with-mpi=/usr/lib/openmpi --disable-popcnt
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-popcnt
+checking for a BSD-compatible install... /usr/bin/install -c
+checking whether build environment is sane... yes
+checking for a thread-safe mkdir -p... /bin/mkdir -p
+checking for gawk... no
+checking for mawk... mawk
+checking whether make sets $(MAKE)... yes
+checking whether make supports nested variables... yes
+checking for gawk... (cached) mawk
+checking for gcc... gcc
+checking whether the C compiler works... yes
+checking for C compiler default output file name... a.out
+checking for suffix of executables...
+checking whether we are cross compiling... no
+checking for suffix of object files... o
+checking whether we are using the GNU C compiler... yes
+checking whether gcc accepts -g... yes
+checking for gcc option to accept ISO C89... none needed
+checking whether gcc understands -c and -o together... yes
+checking for style of include used by make... GNU
+checking dependency style of gcc... none
+checking how to run the C preprocessor... gcc -E
+checking for g++... g++
+checking whether we are using the GNU C++ compiler... yes
+checking whether g++ accepts -g... yes
+checking dependency style of g++... none
+checking for ranlib... ranlib
+checking for ghc... no
+checking for grep that handles long lines and -e... /bin/grep
+checking for egrep... /bin/grep -E
+checking for ANSI C header files... yes
+checking for sys/types.h... yes
+checking for sys/stat.h... yes
+checking for stdlib.h... yes
+checking for string.h... yes
+checking for memory.h... yes
+checking for strings.h... yes
+checking for inttypes.h... yes
+checking for stdint.h... yes
+checking for unistd.h... yes
+checking dlfcn.h usability... yes
+checking dlfcn.h presence... yes
+checking for dlfcn.h... yes
+checking fcntl.h usability... yes
+checking fcntl.h presence... yes
+checking for fcntl.h... yes
+checking float.h usability... yes
+checking float.h presence... yes
+checking for float.h... yes
+checking limits.h usability... yes
+checking limits.h presence... yes
+checking for limits.h... yes
+checking stddef.h usability... yes
+checking stddef.h presence... yes
+checking for stddef.h... yes
+checking for stdint.h... (cached) yes
+checking for stdlib.h... (cached) yes
+checking sys/param.h usability... yes
+checking sys/param.h presence... yes
+checking for sys/param.h... yes
+checking for stdbool.h that conforms to C99... yes
+checking for _Bool... yes
+checking for ANSI C header files... (cached) yes
+checking whether byte ordering is bigendian... no
+checking for an ANSI C-conforming const... yes
+checking for inline... inline
+checking for ptrdiff_t... yes
+checking for mode_t... yes
+checking for pid_t... yes
+checking for size_t... yes
+checking for ssize_t... yes
+checking for int64_t... yes
+checking for uint8_t... yes
+checking for uint16_t... yes
+checking for uint32_t... yes
+checking for uint64_t... yes
+checking for dup2... yes
+checking for gethostname... yes
+checking for getopt_long... yes
+checking for getpagesize... yes
+checking for memset... yes
+checking for strdup... yes
+checking for strerror... yes
+checking for strtoul... yes
+checking vfork.h usability... no
+checking vfork.h presence... no
+checking for vfork.h... no
+checking for fork... yes
+checking for vfork... yes
+checking for working fork... yes
+checking for working vfork... (cached) yes
+checking for stdlib.h... (cached) yes
+checking for GNU libc compatible malloc... yes
+checking for working memcmp... yes
+checking for stdlib.h... (cached) yes
+checking for GNU libc compatible realloc... yes
+checking for vprintf... yes
+checking for _doprnt... no
+checking whether HOST_NAME_MAX is declared... yes
+checking mpi.h usability... yes
+checking mpi.h presence... yes
+checking for mpi.h... yes
+checking for MPI_Init in -lmpi... yes
+checking for sqrt in -lm... yes
+checking for pow... yes
+checking for sqrt... yes
+checking for ceilf... yes
+checking for dlsym in -ldl... yes
+checking how to run the C++ preprocessor... g++ -E
+checking boost/property_map/property_map.hpp usability... yes
+checking boost/property_map/property_map.hpp presence... yes
+checking for boost/property_map/property_map.hpp... yes
+checking google/sparse_hash_map usability... yes
+checking google/sparse_hash_map presence... yes
+checking for google/sparse_hash_map... yes
+checking unordered_map usability... no
+checking unordered_map presence... no
+checking for unordered_map... no
+checking tr1/unordered_map usability... yes
+checking tr1/unordered_map presence... yes
+checking for tr1/unordered_map... yes
+checking for g++ option to support OpenMP... -fopenmp
+checking that generated files are newer than configure... done
+configure: creating ./config.status
+config.status: creating Makefile
+config.status: creating ABYSS/Makefile
+config.status: creating Align/Makefile
+config.status: creating Assembly/Makefile
+config.status: creating Common/Makefile
+config.status: creating DataLayer/Makefile
+config.status: creating FMIndex/Makefile
+config.status: creating Graph/Makefile
+config.status: creating Parallel/Makefile
+config.status: creating bin/Makefile
+config.status: creating doc/Makefile
+config.status: creating dialign/Makefile
+config.status: creating kmerprint/Makefile
+config.status: creating AdjList/Makefile
+config.status: creating DAssembler/Makefile
+config.status: creating DistanceEst/Makefile
+config.status: creating Layout/Makefile
+config.status: creating Map/Makefile
+config.status: creating Misc/Makefile
+config.status: creating Overlap/Makefile
+config.status: creating PopBubbles/Makefile
+config.status: creating Scaffold/Makefile
+config.status: creating SimpleGraph/Makefile
+config.status: creating MergePaths/Makefile
+config.status: creating KAligner/Makefile
+config.status: creating ParseAligns/Makefile
+config.status: creating PathOverlap/Makefile
+config.status: creating Consensus/Makefile
+config.status: creating FilterGraph/Makefile
+config.status: creating config.h
+config.status: executing depfiles commands
+configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-popcnt
+make[1]: Leaving directory `/«PKGBUILDDIR»'
+ debian/rules override_dh_auto_build
+make[1]: Entering directory `/«PKGBUILDDIR»'
+dh_auto_build --parallel
+make[2]: Entering directory `/«PKGBUILDDIR»'
+make all-recursive
+make[3]: Entering directory `/«PKGBUILDDIR»'
+Making all in bin
+make[4]: Entering directory `/«PKGBUILDDIR»/bin'
+make[4]: Nothing to be done for `all'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/bin'
+Making all in doc
+make[4]: Entering directory `/«PKGBUILDDIR»/doc'
+make[4]: Nothing to be done for `all'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/doc'
+Making all in Assembly
+make[4]: Entering directory `/«PKGBUILDDIR»/Assembly'
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libassembly_a-AssemblyAlgorithms.o `test -f 'AssemblyAlgorithms.cpp' || echo './'`AssemblyAlgorithms.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libassembly_a-BranchGroup.o `test -f 'BranchGroup.cpp' || echo './'`BranchGroup.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libassembly_a-BranchRecord.o `test -f 'BranchRecord.cpp' || echo './'`BranchRecord.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libassembly_a-DotWriter.o `test -f 'DotWriter.cpp' || echo './'`DotWriter.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libassembly_a-Options.o `test -f 'Options.cpp' || echo './'`Options.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libassembly_a-SequenceCollection.o `test -f 'SequenceCollection.cpp' || echo './'`SequenceCollection.cpp
+rm -f libassembly.a
+ar cru libassembly.a libassembly_a-AssemblyAlgorithms.o libassembly_a-BranchGroup.o libassembly_a-BranchRecord.o libassembly_a-DotWriter.o libassembly_a-Options.o libassembly_a-SequenceCollection.o
+ranlib libassembly.a
+make[4]: Leaving directory `/«PKGBUILDDIR»/Assembly'
+Making all in Common
+make[4]: Entering directory `/«PKGBUILDDIR»/Common'
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libcommon_a-ContigID.o `test -f 'ContigID.cpp' || echo './'`ContigID.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libcommon_a-Fcontrol.o `test -f 'Fcontrol.cpp' || echo './'`Fcontrol.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libcommon_a-Histogram.o `test -f 'Histogram.cpp' || echo './'`Histogram.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libcommon_a-Kmer.o `test -f 'Kmer.cpp' || echo './'`Kmer.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libcommon_a-Log.o `test -f 'Log.cpp' || echo './'`Log.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libcommon_a-Options.o `test -f 'Options.cpp' || echo './'`Options.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libcommon_a-SeqExt.o `test -f 'SeqExt.cpp' || echo './'`SeqExt.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libcommon_a-Sequence.o `test -f 'Sequence.cpp' || echo './'`Sequence.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libcommon_a-SignalHandler.o `test -f 'SignalHandler.cpp' || echo './'`SignalHandler.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libcommon_a-Timer.o `test -f 'Timer.cpp' || echo './'`Timer.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libcommon_a-Uncompress.o `test -f 'Uncompress.cpp' || echo './'`Uncompress.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libcommon_a-city.o `test -f 'city.cc' || echo './'`city.cc
+rm -f libcommon.a
+ar cru libcommon.a libcommon_a-ContigID.o libcommon_a-Fcontrol.o libcommon_a-Histogram.o libcommon_a-Kmer.o libcommon_a-Log.o libcommon_a-Options.o libcommon_a-SeqExt.o libcommon_a-Sequence.o libcommon_a-SignalHandler.o libcommon_a-Timer.o libcommon_a-Uncompress.o libcommon_a-city.o
+ranlib libcommon.a
+make[4]: Leaving directory `/«PKGBUILDDIR»/Common'
+Making all in DataLayer
+make[4]: Entering directory `/«PKGBUILDDIR»/DataLayer'
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libdatalayer_a-FastaReader.o `test -f 'FastaReader.cpp' || echo './'`FastaReader.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libdatalayer_a-FastaWriter.o `test -f 'FastaWriter.cpp' || echo './'`FastaWriter.cpp
+rm -f libdatalayer.a
+ar cru libdatalayer.a libdatalayer_a-FastaReader.o libdatalayer_a-FastaWriter.o
+ranlib libdatalayer.a
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o abyss_fac-fac.o `test -f 'fac.cc' || echo './'`fac.cc
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o abyss-fac abyss_fac-fac.o libdatalayer.a ../Common/libcommon.a -ldl -lm
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o abyss_tofastq-abyss-tofastq.o `test -f 'abyss-tofastq.cc' || echo './'`abyss-tofastq.cc
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o abyss-tofastq abyss_tofastq-abyss-tofastq.o libdatalayer.a ../Common/libcommon.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/DataLayer'
+Making all in FMIndex
+make[4]: Entering directory `/«PKGBUILDDIR»/FMIndex'
+g++ -DHAVE_CONFIG_H -I. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libfmindex_a-bit_array.o `test -f 'bit_array.cc' || echo './'`bit_array.cc
+rm -f libfmindex.a
+ar cru libfmindex.a libfmindex_a-bit_array.o
+ranlib libfmindex.a
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o abyss_count-count.o `test -f 'count.cc' || echo './'`count.cc
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o abyss-count abyss_count-count.o libfmindex.a ../Common/libcommon.a -ldl -lm
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o abyss_dawg-abyss-dawg.o `test -f 'abyss-dawg.cc' || echo './'`abyss-dawg.cc
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o abyss-dawg abyss_dawg-abyss-dawg.o libfmindex.a ../Common/libcommon.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/FMIndex'
+Making all in Graph
+make[4]: Entering directory `/«PKGBUILDDIR»/Graph'
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libgraph_a-ConstrainedSearch.o `test -f 'ConstrainedSearch.cpp' || echo './'`ConstrainedSearch.cpp
+rm -f libgraph.a
+ar cru libgraph.a libgraph_a-ConstrainedSearch.o
+ranlib libgraph.a
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o abyss_gc-gc.o `test -f 'gc.cc' || echo './'`gc.cc
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o abyss-gc abyss_gc-gc.o ../Common/libcommon.a -ldl -lm
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o abyss_todot-todot.o `test -f 'todot.cc' || echo './'`todot.cc
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L. -L/usr/lib/openmpi/lib -Wl,-z,relro -o abyss-todot abyss_todot-todot.o libgraph.a ../Common/libcommon.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/Graph'
+Making all in dialign
+make[4]: Entering directory `/«PKGBUILDDIR»/dialign'
+gcc -DHAVE_CONFIG_H -I. -I.. -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o alig.o alig.c
+gcc -DHAVE_CONFIG_H -I. -I.. -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o assemble.o assemble.c
+gcc -DHAVE_CONFIG_H -I. -I.. -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o diag.o diag.c
+gcc -DHAVE_CONFIG_H -I. -I.. -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o io.o io.c
+io.c: In function 'read_scr_matrix':
+io.c:270:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+ fscanf( fp, "%i", &is);
+ ^
+io.c:282:11: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+ fscanf(fp, "%s\n", rline);
+ ^
+io.c: In function 'read_diag_prob_dist':
+io.c:371:13: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+ fscanf( fp, "%li %li %Le\n", &ti,&tscr,&weight );
+ ^
+gcc -DHAVE_CONFIG_H -I. -I.. -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o orf.o orf.c
+gcc -DHAVE_CONFIG_H -I. -I.. -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o parameters.o parameters.c
+gcc -DHAVE_CONFIG_H -I. -I.. -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o prob.o prob.c
+gcc -DHAVE_CONFIG_H -I. -I.. -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o translate.o translate.c
+rm -f libdialign.a
+ar cru libdialign.a alig.o assemble.o diag.o io.o orf.o parameters.o prob.o translate.o
+ranlib libdialign.a
+gcc -DHAVE_CONFIG_H -I. -I.. -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o museq.o museq.c
+gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o dialign museq.o libdialign.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/dialign'
+Making all in Align
+make[4]: Entering directory `/«PKGBUILDDIR»/Align'
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libalign_a-alignGlobal.o `test -f 'alignGlobal.cc' || echo './'`alignGlobal.cc
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libalign_a-dialign.o `test -f 'dialign.cpp' || echo './'`dialign.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libalign_a-dna_diag_prob.o `test -f 'dna_diag_prob.cc' || echo './'`dna_diag_prob.cc
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o libalign_a-smith_waterman.o `test -f 'smith_waterman.cpp' || echo './'`smith_waterman.cpp
+rm -f libalign.a
+ar cru libalign.a libalign_a-alignGlobal.o libalign_a-dialign.o libalign_a-dna_diag_prob.o libalign_a-smith_waterman.o
+ranlib libalign.a
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -fopenmp -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o abyss_align-align.o `test -f 'align.cc' || echo './'`align.cc
+g++ -Wall -Wextra -Werror -fopenmp -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o abyss-align abyss_align-align.o ./libalign.a ../dialign/libdialign.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -fopenmp -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o abyss_mergepairs-mergepairs.o `test -f 'mergepairs.cc' || echo './'`mergepairs.cc
+g++ -Wall -Wextra -Werror -fopenmp -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o abyss-mergepairs abyss_mergepairs-mergepairs.o ./libalign.a ../dialign/libdialign.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/Align'
+Making all in ABYSS
+make[4]: Entering directory `/«PKGBUILDDIR»/ABYSS'
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Assembly -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o ABYSS-Abyss.o `test -f 'Abyss.cpp' || echo './'`Abyss.cpp
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o ABYSS ABYSS-Abyss.o ../Assembly/libassembly.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/ABYSS'
+Making all in Parallel
+make[4]: Entering directory `/«PKGBUILDDIR»/Parallel'
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Assembly -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o ABYSS_P-parallelAbyss.o `test -f 'parallelAbyss.cpp' || echo './'`parallelAbyss.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Assembly -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o ABYSS_P-CommLayer.o `test -f 'CommLayer.cpp' || echo './'`CommLayer.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Assembly -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o ABYSS_P-NetworkSequenceCollection.o `test -f 'NetworkSequenceCollection.cpp' || echo './'`NetworkSequenceCollection.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Assembly -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o ABYSS_P-MessageBuffer.o `test -f 'MessageBuffer.cpp' || echo './'`MessageBuffer.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Assembly -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o ABYSS_P-Messages.o `test -f 'Messages.cpp' || echo './'`Messages.cpp
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o ABYSS-P ABYSS_P-parallelAbyss.o ABYSS_P-CommLayer.o ABYSS_P-NetworkSequenceCollection.o ABYSS_P-MessageBuffer.o ABYSS_P-Messages.o ../Assembly/libassembly.a ../Common/libcommon.a ../DataLayer/libdatalayer.a -lmpi -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/Parallel'
+Making all in AdjList
+make[4]: Entering directory `/«PKGBUILDDIR»/AdjList'
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o AdjList-AdjList.o `test -f 'AdjList.cpp' || echo './'`AdjList.cpp
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o AdjList AdjList-AdjList.o ../Graph/libgraph.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/AdjList'
+Making all in Consensus
+make[4]: Entering directory `/«PKGBUILDDIR»/Consensus'
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o Consensus-Consensus.o `test -f 'Consensus.cpp' || echo './'`Consensus.cpp
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o Consensus Consensus-Consensus.o ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/Consensus'
+Making all in DAssembler
+make[4]: Entering directory `/«PKGBUILDDIR»/DAssembler'
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o DAssembler-DAssembler.o `test -f 'DAssembler.cpp' || echo './'`DAssembler.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o DAssembler-RotatedRead.o `test -f 'RotatedRead.cpp' || echo './'`RotatedRead.cpp
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o DAssembler DAssembler-DAssembler.o DAssembler-RotatedRead.o ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/DAssembler'
+Making all in DistanceEst
+make[4]: Entering directory `/«PKGBUILDDIR»/DistanceEst'
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -fopenmp -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o DistanceEst-DistanceEst.o `test -f 'DistanceEst.cpp' || echo './'`DistanceEst.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -fopenmp -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o DistanceEst-MLE.o `test -f 'MLE.cpp' || echo './'`MLE.cpp
+g++ -Wall -Wextra -Werror -fopenmp -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o DistanceEst DistanceEst-DistanceEst.o DistanceEst-MLE.o ../Common/libcommon.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/DistanceEst'
+Making all in KAligner
+make[4]: Entering directory `/«PKGBUILDDIR»/KAligner'
+g++ -DHAVE_CONFIG_H -I. -I.. -pthread -I.. -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o KAligner-KAligner.o `test -f 'KAligner.cpp' || echo './'`KAligner.cpp
+g++ -DHAVE_CONFIG_H -I. -I.. -pthread -I.. -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o KAligner-Aligner.o `test -f 'Aligner.cpp' || echo './'`Aligner.cpp
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -pthread -L/usr/lib/openmpi/lib -Wl,-z,relro -o KAligner KAligner-KAligner.o KAligner-Aligner.o ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/KAligner'
+Making all in Layout
+make[4]: Entering directory `/«PKGBUILDDIR»/Layout'
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o abyss_layout-layout.o `test -f 'layout.cc' || echo './'`layout.cc
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o abyss-layout abyss_layout-layout.o ../Common/libcommon.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/Layout'
+Making all in Map
+make[4]: Entering directory `/«PKGBUILDDIR»/Map'
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I../FMIndex -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o abyss_index-index.o `test -f 'index.cc' || echo './'`index.cc
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o abyss-index abyss_index-index.o ../FMIndex/libfmindex.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I../FMIndex -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -fopenmp -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o abyss_map-map.o `test -f 'map.cc' || echo './'`map.cc
+g++ -Wall -Wextra -Werror -fopenmp -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o abyss-map abyss_map-map.o ../FMIndex/libfmindex.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I../FMIndex -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -fopenmp -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o abyss_overlap-overlap.o `test -f 'overlap.cc' || echo './'`overlap.cc
+g++ -Wall -Wextra -Werror -fopenmp -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o abyss-overlap abyss_overlap-overlap.o ../FMIndex/libfmindex.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/Map'
+Making all in MergePaths
+make[4]: Entering directory `/«PKGBUILDDIR»/MergePaths'
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -fopenmp -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o MergePaths-MergePaths.o `test -f 'MergePaths.cpp' || echo './'`MergePaths.cpp
+g++ -Wall -Wextra -Werror -fopenmp -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o MergePaths MergePaths-MergePaths.o ../DataLayer/libdatalayer.a ../Common/libcommon.a ../Graph/libgraph.a -ldl -lm
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Align -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o MergeContigs-MergeContigs.o `test -f 'MergeContigs.cpp' || echo './'`MergeContigs.cpp
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o MergeContigs MergeContigs-MergeContigs.o ../DataLayer/libdatalayer.a ../Graph/libgraph.a ../Align/libalign.a ../Common/libcommon.a -ldl -lm
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Align -I../Common -I../DataLayer -I../SimpleGraph -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o PathConsensus-PathConsensus.o `test -f 'PathConsensus.cpp' || echo './'`PathConsensus.cpp
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o PathConsensus PathConsensus-PathConsensus.o ../DataLayer/libdatalayer.a ../Graph/libgraph.a ../Align/libalign.a ../Common/libcommon.a ../dialign/libdialign.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/MergePaths'
+Making all in Misc
+make[4]: Entering directory `/«PKGBUILDDIR»/Misc'
+make[4]: Nothing to be done for `all'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/Misc'
+Making all in Overlap
+make[4]: Entering directory `/«PKGBUILDDIR»/Overlap'
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o Overlap-Overlap.o `test -f 'Overlap.cpp' || echo './'`Overlap.cpp
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o Overlap Overlap-Overlap.o ../Graph/libgraph.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/Overlap'
+Making all in ParseAligns
+make[4]: Entering directory `/«PKGBUILDDIR»/ParseAligns'
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o abyss_fixmate-abyss-fixmate.o `test -f 'abyss-fixmate.cc' || echo './'`abyss-fixmate.cc
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o abyss-fixmate abyss_fixmate-abyss-fixmate.o ../Common/libcommon.a -ldl -lm
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o ParseAligns-ParseAligns.o `test -f 'ParseAligns.cpp' || echo './'`ParseAligns.cpp
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o ParseAligns ParseAligns-ParseAligns.o ../Common/libcommon.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/ParseAligns'
+Making all in PathOverlap
+make[4]: Entering directory `/«PKGBUILDDIR»/PathOverlap'
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o PathOverlap-PathOverlap.o `test -f 'PathOverlap.cpp' || echo './'`PathOverlap.cpp
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o PathOverlap PathOverlap-PathOverlap.o ../DataLayer/libdatalayer.a ../Graph/libgraph.a ../Common/libcommon.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/PathOverlap'
+Making all in PopBubbles
+make[4]: Entering directory `/«PKGBUILDDIR»/PopBubbles'
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Align -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -fopenmp -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o PopBubbles-PopBubbles.o `test -f 'PopBubbles.cpp' || echo './'`PopBubbles.cpp
+g++ -Wall -Wextra -Werror -fopenmp -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o PopBubbles PopBubbles-PopBubbles.o ../Graph/libgraph.a ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a ../dialign/libdialign.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/PopBubbles'
+Making all in Scaffold
+make[4]: Entering directory `/«PKGBUILDDIR»/Scaffold'
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -fopenmp -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o abyss_scaffold-scaffold.o `test -f 'scaffold.cc' || echo './'`scaffold.cc
+g++ -Wall -Wextra -Werror -fopenmp -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o abyss-scaffold abyss_scaffold-scaffold.o ../Common/libcommon.a -ldl -lm
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -fopenmp -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o abyss_junction-junction.o `test -f 'junction.cc' || echo './'`junction.cc
+g++ -Wall -Wextra -Werror -fopenmp -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o abyss-junction abyss_junction-junction.o ../Common/libcommon.a -ldl -lm
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o abyss_drawgraph-drawgraph.o `test -f 'drawgraph.cc' || echo './'`drawgraph.cc
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o abyss-drawgraph abyss_drawgraph-drawgraph.o ../Common/libcommon.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/Scaffold'
+Making all in SimpleGraph
+make[4]: Entering directory `/«PKGBUILDDIR»/SimpleGraph'
+g++ -DHAVE_CONFIG_H -I. -I.. -pthread -I.. -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wno-strict-aliasing -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o SimpleGraph-SimpleGraph.o `test -f 'SimpleGraph.cpp' || echo './'`SimpleGraph.cpp
+g++ -Wno-strict-aliasing -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -pthread -L/usr/lib/openmpi/lib -Wl,-z,relro -o SimpleGraph SimpleGraph-SimpleGraph.o ../Graph/libgraph.a ../Common/libcommon.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/SimpleGraph'
+Making all in kmerprint
+make[4]: Entering directory `/«PKGBUILDDIR»/kmerprint'
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Assembly -I../Common -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o kmerprint-kmerprint.o `test -f 'kmerprint.cc' || echo './'`kmerprint.cc
+g++ -Wall -Wextra -Werror -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o kmerprint kmerprint-kmerprint.o ../Assembly/libassembly.a ../Common/libcommon.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/kmerprint'
+Making all in FilterGraph
+make[4]: Entering directory `/«PKGBUILDDIR»/FilterGraph'
+g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I. -I/usr/lib/openmpi/include -D_FORTIFY_SOURCE=2 -Wall -Wextra -Werror -fopenmp -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o abyss_filtergraph-FilterGraph.o `test -f 'FilterGraph.cpp' || echo './'`FilterGraph.cpp
+g++ -Wall -Wextra -Werror -fopenmp -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -o abyss-filtergraph abyss_filtergraph-FilterGraph.o ../Graph/libgraph.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
+make[4]: Leaving directory `/«PKGBUILDDIR»/FilterGraph'
+make[4]: Entering directory `/«PKGBUILDDIR»'
+make[4]: Leaving directory `/«PKGBUILDDIR»'
+make[3]: Leaving directory `/«PKGBUILDDIR»'
+make[2]: Leaving directory `/«PKGBUILDDIR»'
+make[1]: Leaving directory `/«PKGBUILDDIR»'
+ dh_auto_test
+make[1]: Entering directory `/«PKGBUILDDIR»'
+Making check in bin
+make[2]: Entering directory `/«PKGBUILDDIR»/bin'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/bin'
+Making check in doc
+make[2]: Entering directory `/«PKGBUILDDIR»/doc'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/doc'
+Making check in Assembly
+make[2]: Entering directory `/«PKGBUILDDIR»/Assembly'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/Assembly'
+Making check in Common
+make[2]: Entering directory `/«PKGBUILDDIR»/Common'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/Common'
+Making check in DataLayer
+make[2]: Entering directory `/«PKGBUILDDIR»/DataLayer'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/DataLayer'
+Making check in FMIndex
+make[2]: Entering directory `/«PKGBUILDDIR»/FMIndex'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/FMIndex'
+Making check in Graph
+make[2]: Entering directory `/«PKGBUILDDIR»/Graph'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/Graph'
+Making check in dialign
+make[2]: Entering directory `/«PKGBUILDDIR»/dialign'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/dialign'
+Making check in Align
+make[2]: Entering directory `/«PKGBUILDDIR»/Align'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/Align'
+Making check in ABYSS
+make[2]: Entering directory `/«PKGBUILDDIR»/ABYSS'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/ABYSS'
+Making check in Parallel
+make[2]: Entering directory `/«PKGBUILDDIR»/Parallel'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/Parallel'
+Making check in AdjList
+make[2]: Entering directory `/«PKGBUILDDIR»/AdjList'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/AdjList'
+Making check in Consensus
+make[2]: Entering directory `/«PKGBUILDDIR»/Consensus'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/Consensus'
+Making check in DAssembler
+make[2]: Entering directory `/«PKGBUILDDIR»/DAssembler'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/DAssembler'
+Making check in DistanceEst
+make[2]: Entering directory `/«PKGBUILDDIR»/DistanceEst'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/DistanceEst'
+Making check in KAligner
+make[2]: Entering directory `/«PKGBUILDDIR»/KAligner'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/KAligner'
+Making check in Layout
+make[2]: Entering directory `/«PKGBUILDDIR»/Layout'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/Layout'
+Making check in Map
+make[2]: Entering directory `/«PKGBUILDDIR»/Map'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/Map'
+Making check in MergePaths
+make[2]: Entering directory `/«PKGBUILDDIR»/MergePaths'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/MergePaths'
+Making check in Misc
+make[2]: Entering directory `/«PKGBUILDDIR»/Misc'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/Misc'
+Making check in Overlap
+make[2]: Entering directory `/«PKGBUILDDIR»/Overlap'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/Overlap'
+Making check in ParseAligns
+make[2]: Entering directory `/«PKGBUILDDIR»/ParseAligns'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/ParseAligns'
+Making check in PathOverlap
+make[2]: Entering directory `/«PKGBUILDDIR»/PathOverlap'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/PathOverlap'
+Making check in PopBubbles
+make[2]: Entering directory `/«PKGBUILDDIR»/PopBubbles'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/PopBubbles'
+Making check in Scaffold
+make[2]: Entering directory `/«PKGBUILDDIR»/Scaffold'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/Scaffold'
+Making check in SimpleGraph
+make[2]: Entering directory `/«PKGBUILDDIR»/SimpleGraph'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/SimpleGraph'
+Making check in kmerprint
+make[2]: Entering directory `/«PKGBUILDDIR»/kmerprint'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/kmerprint'
+Making check in FilterGraph
+make[2]: Entering directory `/«PKGBUILDDIR»/FilterGraph'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/FilterGraph'
+make[2]: Entering directory `/«PKGBUILDDIR»'
+make[2]: Leaving directory `/«PKGBUILDDIR»'
+make[1]: Leaving directory `/«PKGBUILDDIR»'
+ fakeroot debian/rules binary
+dh binary
+ dh_testroot
+ dh_prep
+ debian/rules override_dh_auto_install
+make[1]: Entering directory `/«PKGBUILDDIR»'
+dh_auto_install --destdir=debian/tmp
+make[2]: Entering directory `/«PKGBUILDDIR»'
+Making install in bin
+make[3]: Entering directory `/«PKGBUILDDIR»/bin'
+make[4]: Entering directory `/«PKGBUILDDIR»/bin'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+ /usr/bin/install -c abyss-bowtie abyss-bowtie2 abyss-bwa abyss-bwasw abyss-fatoagp abyss-kaligner abyss-pe abyss-samtoafg '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/bin'
+make[3]: Leaving directory `/«PKGBUILDDIR»/bin'
+Making install in doc
+make[3]: Entering directory `/«PKGBUILDDIR»/doc'
+make[4]: Entering directory `/«PKGBUILDDIR»/doc'
+make[4]: Nothing to be done for `install-exec-am'.
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/share/doc/abyss'
+ /usr/bin/install -c -m 644 flowchart.pdf '/«PKGBUILDDIR»/debian/tmp/usr/share/doc/abyss'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/share/man/man1'
+ /usr/bin/install -c -m 644 ABYSS.1 abyss-pe.1 abyss-tofastq.1 '/«PKGBUILDDIR»/debian/tmp/usr/share/man/man1'
+make[4]: Leaving directory `/«PKGBUILDDIR»/doc'
+make[3]: Leaving directory `/«PKGBUILDDIR»/doc'
+Making install in Assembly
+make[3]: Entering directory `/«PKGBUILDDIR»/Assembly'
+make[4]: Entering directory `/«PKGBUILDDIR»/Assembly'
+make[4]: Nothing to be done for `install-exec-am'.
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/Assembly'
+make[3]: Leaving directory `/«PKGBUILDDIR»/Assembly'
+Making install in Common
+make[3]: Entering directory `/«PKGBUILDDIR»/Common'
+make[4]: Entering directory `/«PKGBUILDDIR»/Common'
+make[4]: Nothing to be done for `install-exec-am'.
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/Common'
+make[3]: Leaving directory `/«PKGBUILDDIR»/Common'
+Making install in DataLayer
+make[3]: Entering directory `/«PKGBUILDDIR»/DataLayer'
+make[4]: Entering directory `/«PKGBUILDDIR»/DataLayer'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+ /usr/bin/install -c abyss-fac abyss-tofastq '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/DataLayer'
+make[3]: Leaving directory `/«PKGBUILDDIR»/DataLayer'
+Making install in FMIndex
+make[3]: Entering directory `/«PKGBUILDDIR»/FMIndex'
+make[4]: Entering directory `/«PKGBUILDDIR»/FMIndex'
+make[4]: Nothing to be done for `install-exec-am'.
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/FMIndex'
+make[3]: Leaving directory `/«PKGBUILDDIR»/FMIndex'
+Making install in Graph
+make[3]: Entering directory `/«PKGBUILDDIR»/Graph'
+make[4]: Entering directory `/«PKGBUILDDIR»/Graph'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+ /usr/bin/install -c abyss-gc abyss-todot '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/Graph'
+make[3]: Leaving directory `/«PKGBUILDDIR»/Graph'
+Making install in dialign
+make[3]: Entering directory `/«PKGBUILDDIR»/dialign'
+make[4]: Entering directory `/«PKGBUILDDIR»/dialign'
+make[4]: Nothing to be done for `install-exec-am'.
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/dialign'
+make[3]: Leaving directory `/«PKGBUILDDIR»/dialign'
+Making install in Align
+make[3]: Entering directory `/«PKGBUILDDIR»/Align'
+make[4]: Entering directory `/«PKGBUILDDIR»/Align'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+ /usr/bin/install -c abyss-align abyss-mergepairs '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/Align'
+make[3]: Leaving directory `/«PKGBUILDDIR»/Align'
+Making install in ABYSS
+make[3]: Entering directory `/«PKGBUILDDIR»/ABYSS'
+make[4]: Entering directory `/«PKGBUILDDIR»/ABYSS'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+ /usr/bin/install -c ABYSS '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/ABYSS'
+make[3]: Leaving directory `/«PKGBUILDDIR»/ABYSS'
+Making install in Parallel
+make[3]: Entering directory `/«PKGBUILDDIR»/Parallel'
+make[4]: Entering directory `/«PKGBUILDDIR»/Parallel'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+ /usr/bin/install -c ABYSS-P '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/Parallel'
+make[3]: Leaving directory `/«PKGBUILDDIR»/Parallel'
+Making install in AdjList
+make[3]: Entering directory `/«PKGBUILDDIR»/AdjList'
+make[4]: Entering directory `/«PKGBUILDDIR»/AdjList'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+ /usr/bin/install -c AdjList '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/AdjList'
+make[3]: Leaving directory `/«PKGBUILDDIR»/AdjList'
+Making install in Consensus
+make[3]: Entering directory `/«PKGBUILDDIR»/Consensus'
+make[4]: Entering directory `/«PKGBUILDDIR»/Consensus'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+ /usr/bin/install -c Consensus '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/Consensus'
+make[3]: Leaving directory `/«PKGBUILDDIR»/Consensus'
+Making install in DAssembler
+make[3]: Entering directory `/«PKGBUILDDIR»/DAssembler'
+make[4]: Entering directory `/«PKGBUILDDIR»/DAssembler'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+ /usr/bin/install -c DAssembler '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/DAssembler'
+make[3]: Leaving directory `/«PKGBUILDDIR»/DAssembler'
+Making install in DistanceEst
+make[3]: Entering directory `/«PKGBUILDDIR»/DistanceEst'
+make[4]: Entering directory `/«PKGBUILDDIR»/DistanceEst'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+ /usr/bin/install -c DistanceEst '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/DistanceEst'
+make[3]: Leaving directory `/«PKGBUILDDIR»/DistanceEst'
+Making install in KAligner
+make[3]: Entering directory `/«PKGBUILDDIR»/KAligner'
+make[4]: Entering directory `/«PKGBUILDDIR»/KAligner'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+ /usr/bin/install -c KAligner '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/KAligner'
+make[3]: Leaving directory `/«PKGBUILDDIR»/KAligner'
+Making install in Layout
+make[3]: Entering directory `/«PKGBUILDDIR»/Layout'
+make[4]: Entering directory `/«PKGBUILDDIR»/Layout'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+ /usr/bin/install -c abyss-layout '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/Layout'
+make[3]: Leaving directory `/«PKGBUILDDIR»/Layout'
+Making install in Map
+make[3]: Entering directory `/«PKGBUILDDIR»/Map'
+make[4]: Entering directory `/«PKGBUILDDIR»/Map'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+ /usr/bin/install -c abyss-index abyss-map abyss-overlap '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/Map'
+make[3]: Leaving directory `/«PKGBUILDDIR»/Map'
+Making install in MergePaths
+make[3]: Entering directory `/«PKGBUILDDIR»/MergePaths'
+make[4]: Entering directory `/«PKGBUILDDIR»/MergePaths'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+ /usr/bin/install -c MergePaths MergeContigs PathConsensus '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/MergePaths'
+make[3]: Leaving directory `/«PKGBUILDDIR»/MergePaths'
+Making install in Misc
+make[3]: Entering directory `/«PKGBUILDDIR»/Misc'
+make[4]: Entering directory `/«PKGBUILDDIR»/Misc'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/Misc'
+make[3]: Leaving directory `/«PKGBUILDDIR»/Misc'
+Making install in Overlap
+make[3]: Entering directory `/«PKGBUILDDIR»/Overlap'
+make[4]: Entering directory `/«PKGBUILDDIR»/Overlap'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+ /usr/bin/install -c Overlap '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/Overlap'
+make[3]: Leaving directory `/«PKGBUILDDIR»/Overlap'
+Making install in ParseAligns
+make[3]: Entering directory `/«PKGBUILDDIR»/ParseAligns'
+make[4]: Entering directory `/«PKGBUILDDIR»/ParseAligns'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+ /usr/bin/install -c abyss-fixmate ParseAligns '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/ParseAligns'
+make[3]: Leaving directory `/«PKGBUILDDIR»/ParseAligns'
+Making install in PathOverlap
+make[3]: Entering directory `/«PKGBUILDDIR»/PathOverlap'
+make[4]: Entering directory `/«PKGBUILDDIR»/PathOverlap'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+ /usr/bin/install -c PathOverlap '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/PathOverlap'
+make[3]: Leaving directory `/«PKGBUILDDIR»/PathOverlap'
+Making install in PopBubbles
+make[3]: Entering directory `/«PKGBUILDDIR»/PopBubbles'
+make[4]: Entering directory `/«PKGBUILDDIR»/PopBubbles'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+ /usr/bin/install -c PopBubbles '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/PopBubbles'
+make[3]: Leaving directory `/«PKGBUILDDIR»/PopBubbles'
+Making install in Scaffold
+make[3]: Entering directory `/«PKGBUILDDIR»/Scaffold'
+make[4]: Entering directory `/«PKGBUILDDIR»/Scaffold'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+ /usr/bin/install -c abyss-scaffold abyss-junction '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/Scaffold'
+make[3]: Leaving directory `/«PKGBUILDDIR»/Scaffold'
+Making install in SimpleGraph
+make[3]: Entering directory `/«PKGBUILDDIR»/SimpleGraph'
+make[4]: Entering directory `/«PKGBUILDDIR»/SimpleGraph'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+ /usr/bin/install -c SimpleGraph '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/SimpleGraph'
+make[3]: Leaving directory `/«PKGBUILDDIR»/SimpleGraph'
+Making install in kmerprint
+make[3]: Entering directory `/«PKGBUILDDIR»/kmerprint'
+make[4]: Entering directory `/«PKGBUILDDIR»/kmerprint'
+make[4]: Nothing to be done for `install-exec-am'.
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/kmerprint'
+make[3]: Leaving directory `/«PKGBUILDDIR»/kmerprint'
+Making install in FilterGraph
+make[3]: Entering directory `/«PKGBUILDDIR»/FilterGraph'
+make[4]: Entering directory `/«PKGBUILDDIR»/FilterGraph'
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+ /usr/bin/install -c abyss-filtergraph '/«PKGBUILDDIR»/debian/tmp/usr/bin'
+make[4]: Nothing to be done for `install-data-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/FilterGraph'
+make[3]: Leaving directory `/«PKGBUILDDIR»/FilterGraph'
+make[3]: Entering directory `/«PKGBUILDDIR»'
+make[4]: Entering directory `/«PKGBUILDDIR»'
+make[4]: Nothing to be done for `install-exec-am'.
+ /bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/share/doc/abyss'
+ /usr/bin/install -c -m 644 ChangeLog COPYRIGHT LICENSE README.css README.html README.md '/«PKGBUILDDIR»/debian/tmp/usr/share/doc/abyss'
+make[4]: Leaving directory `/«PKGBUILDDIR»'
+make[3]: Leaving directory `/«PKGBUILDDIR»'
+make[2]: Leaving directory `/«PKGBUILDDIR»'
+make[1]: Leaving directory `/«PKGBUILDDIR»'
+ dh_install
+ dh_installdocs
+ dh_installchangelogs
+ dh_installman
+ dh_perl
+ dh_link
+ dh_compress
+ dh_fixperms
+ dh_strip
+ dh_makeshlibs
+ dh_shlibdeps
+ dh_installdeb
+ dh_gencontrol
+dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
+ dh_md5sums
+ dh_builddeb
+dpkg-deb: building package `abyss' in `../abyss_1.3.6-1_amd64.deb'.
+ dpkg-genchanges >../abyss_1.3.6-1_amd64.changes
+dpkg-genchanges: including full source code in upload
+ dpkg-source --after-build abyss-1.3.6
+dpkg-buildpackage: full upload (original source is included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20130908-1205
+
+Finished
+────────
+
+I: Built successfully
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build Chroot │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+lintian
+───────
+
+Merged Build-Depends: lintian
+Filtered Build-Depends: lintian
+dpkg-deb: building package `sbuild-build-depends-lintian-dummy' in `/«BUILDDIR»/resolver-4VvHQ0/apt_archive/sbuild-build-depends-lintian-dummy.deb'.
+OK
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install lintian build dependencies (apt-based resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Installing build dependencies
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ diffstat hardening-includes libapt-pkg-perl libarchive-zip-perl
+ libclass-accessor-perl libclone-perl libdigest-hmac-perl libemail-valid-perl
+ libfile-basedir-perl libio-pty-perl libio-socket-inet6-perl
+ libio-socket-ssl-perl libio-string-perl libipc-run-perl
+ liblist-moreutils-perl libmailtools-perl libnet-dns-perl
+ libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl
+ libnet-ssleay-perl libparse-debianchangelog-perl libsocket6-perl libssl1.0.0
+ libsub-name-perl libtext-levenshtein-perl liburi-perl lintian netbase
+ patchutils t1utils
+Suggested packages:
+ libwww-perl binutils-multiarch libtext-template-perl
+Recommended packages:
+ libauthen-sasl-perl libhtml-parser-perl libhtml-template-perl
+ libxml-simple-perl libperlio-gzip-perl ifupdown
+The following NEW packages will be installed:
+ diffstat hardening-includes libapt-pkg-perl libarchive-zip-perl
+ libclass-accessor-perl libclone-perl libdigest-hmac-perl libemail-valid-perl
+ libfile-basedir-perl libio-pty-perl libio-socket-inet6-perl
+ libio-socket-ssl-perl libio-string-perl libipc-run-perl
+ liblist-moreutils-perl libmailtools-perl libnet-dns-perl
+ libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl
+ libnet-ssleay-perl libparse-debianchangelog-perl libsocket6-perl libssl1.0.0
+ libsub-name-perl libtext-levenshtein-perl liburi-perl lintian netbase
+ patchutils sbuild-build-depends-lintian-dummy t1utils
+debconf: delaying package configuration, since apt-utils is not installed
+0 upgraded, 32 newly installed, 0 to remove and 0 not upgraded.
+Need to get 0 B/3738 kB of archives.
+After this operation, 11.2 MB of additional disk space will be used.
+Selecting previously unselected package libssl1.0.0:amd64.
+(Reading database ... 24616 files and directories currently installed.)
+Unpacking libssl1.0.0:amd64 (from .../libssl1.0.0_1.0.1e-3_amd64.deb) ...
+Selecting previously unselected package libnet-ssleay-perl.
+Unpacking libnet-ssleay-perl (from .../libnet-ssleay-perl_1.55-1+b2_amd64.deb) ...
+Selecting previously unselected package netbase.
+Unpacking netbase (from .../archives/netbase_5.1_all.deb) ...
+Selecting previously unselected package libio-socket-ssl-perl.
+Unpacking libio-socket-ssl-perl (from .../libio-socket-ssl-perl_1.953-2_all.deb) ...
+Selecting previously unselected package libnet-smtp-ssl-perl.
+Unpacking libnet-smtp-ssl-perl (from .../libnet-smtp-ssl-perl_1.01-3_all.deb) ...
+Selecting previously unselected package libmailtools-perl.
+Unpacking libmailtools-perl (from .../libmailtools-perl_2.12-1_all.deb) ...
+Selecting previously unselected package libdigest-hmac-perl.
+Unpacking libdigest-hmac-perl (from .../libdigest-hmac-perl_1.03+dfsg-1_all.deb) ...
+Selecting previously unselected package libnet-ip-perl.
+Unpacking libnet-ip-perl (from .../libnet-ip-perl_1.26-1_all.deb) ...
+Selecting previously unselected package libsocket6-perl.
+Unpacking libsocket6-perl (from .../libsocket6-perl_0.23-1+b3_amd64.deb) ...
+Selecting previously unselected package libio-socket-inet6-perl.
+Unpacking libio-socket-inet6-perl (from .../libio-socket-inet6-perl_2.69-2_all.deb) ...
+Selecting previously unselected package libnet-dns-perl.
+Unpacking libnet-dns-perl (from .../libnet-dns-perl_0.68-1.2_amd64.deb) ...
+Selecting previously unselected package libnet-domain-tld-perl.
+Unpacking libnet-domain-tld-perl (from .../libnet-domain-tld-perl_1.69-1_all.deb) ...
+Selecting previously unselected package libemail-valid-perl.
+Unpacking libemail-valid-perl (from .../libemail-valid-perl_0.190-1_all.deb) ...
+Selecting previously unselected package diffstat.
+Unpacking diffstat (from .../diffstat_1.55-3_amd64.deb) ...
+Selecting previously unselected package hardening-includes.
+Unpacking hardening-includes (from .../hardening-includes_2.3_all.deb) ...
+Selecting previously unselected package libapt-pkg-perl.
+Unpacking libapt-pkg-perl (from .../libapt-pkg-perl_0.1.29+b1_amd64.deb) ...
+Selecting previously unselected package libarchive-zip-perl.
+Unpacking libarchive-zip-perl (from .../libarchive-zip-perl_1.30-7_all.deb) ...
+Selecting previously unselected package libsub-name-perl.
+Unpacking libsub-name-perl (from .../libsub-name-perl_0.05-1+b3_amd64.deb) ...
+Selecting previously unselected package libclass-accessor-perl.
+Unpacking libclass-accessor-perl (from .../libclass-accessor-perl_0.34-1_all.deb) ...
+Selecting previously unselected package libclone-perl.
+Unpacking libclone-perl (from .../libclone-perl_0.34-1+b1_amd64.deb) ...
+Selecting previously unselected package libfile-basedir-perl.
+Unpacking libfile-basedir-perl (from .../libfile-basedir-perl_0.03-1_all.deb) ...
+Selecting previously unselected package libio-pty-perl.
+Unpacking libio-pty-perl (from .../libio-pty-perl_1%3a1.08-1+b3_amd64.deb) ...
+Selecting previously unselected package libio-string-perl.
+Unpacking libio-string-perl (from .../libio-string-perl_1.08-2_all.deb) ...
+Selecting previously unselected package libipc-run-perl.
+Unpacking libipc-run-perl (from .../libipc-run-perl_0.92-1_all.deb) ...
+Selecting previously unselected package liblist-moreutils-perl.
+Unpacking liblist-moreutils-perl (from .../liblist-moreutils-perl_0.33-1+b2_amd64.deb) ...
+Selecting previously unselected package libparse-debianchangelog-perl.
+Unpacking libparse-debianchangelog-perl (from .../libparse-debianchangelog-perl_1.2.0-1_all.deb) ...
+Selecting previously unselected package libtext-levenshtein-perl.
+Unpacking libtext-levenshtein-perl (from .../libtext-levenshtein-perl_0.06~01-2_all.deb) ...
+Selecting previously unselected package liburi-perl.
+Unpacking liburi-perl (from .../liburi-perl_1.60-1_all.deb) ...
+Selecting previously unselected package patchutils.
+Unpacking patchutils (from .../patchutils_0.3.2-2_amd64.deb) ...
+Selecting previously unselected package t1utils.
+Unpacking t1utils (from .../t1utils_1.37-2_amd64.deb) ...
+Selecting previously unselected package lintian.
+Unpacking lintian (from .../lintian_2.5.17_all.deb) ...
+Selecting previously unselected package sbuild-build-depends-lintian-dummy.
+Unpacking sbuild-build-depends-lintian-dummy (from .../sbuild-build-depends-lintian-dummy.deb) ...
+Processing triggers for man-db ...
+Not building database; man-db/auto-update is not 'true'.
+Setting up libssl1.0.0:amd64 (1.0.1e-3) ...
+Setting up libnet-ssleay-perl (1.55-1+b2) ...
+Setting up netbase (5.1) ...
+Setting up libio-socket-ssl-perl (1.953-2) ...
+Setting up libnet-smtp-ssl-perl (1.01-3) ...
+Setting up libmailtools-perl (2.12-1) ...
+Setting up libdigest-hmac-perl (1.03+dfsg-1) ...
+Setting up libnet-ip-perl (1.26-1) ...
+Setting up libsocket6-perl (0.23-1+b3) ...
+Setting up libio-socket-inet6-perl (2.69-2) ...
+Setting up libnet-dns-perl (0.68-1.2) ...
+Setting up libnet-domain-tld-perl (1.69-1) ...
+Setting up libemail-valid-perl (0.190-1) ...
+Setting up diffstat (1.55-3) ...
+Setting up hardening-includes (2.3) ...
+Setting up libapt-pkg-perl (0.1.29+b1) ...
+Setting up libarchive-zip-perl (1.30-7) ...
+Setting up libsub-name-perl (0.05-1+b3) ...
+Setting up libclass-accessor-perl (0.34-1) ...
+Setting up libclone-perl (0.34-1+b1) ...
+Setting up libfile-basedir-perl (0.03-1) ...
+Setting up libio-pty-perl (1:1.08-1+b3) ...
+Setting up libio-string-perl (1.08-2) ...
+Setting up libipc-run-perl (0.92-1) ...
+Setting up liblist-moreutils-perl (0.33-1+b2) ...
+Setting up libparse-debianchangelog-perl (1.2.0-1) ...
+Setting up libtext-levenshtein-perl (0.06~01-2) ...
+Setting up liburi-perl (1.60-1) ...
+Setting up patchutils (0.3.2-2) ...
+Setting up t1utils (1.37-2) ...
+Setting up lintian (2.5.17) ...
+Setting up sbuild-build-depends-lintian-dummy (0.invalid.0) ...
+Processing triggers for libc-bin ...
+I: abyss source: quilt-patch-missing-description abyss-pe
+I: abyss: spelling-error-in-binary usr/lib/abyss/SimpleGraph paramter parameter
+I: abyss: spelling-error-in-binary usr/lib/abyss/abyss-tofastq ouput output
+I: abyss: hyphen-used-as-minus-sign usr/share/man/man1/abyss-pe.1.gz:216
+I: abyss: possible-documentation-but-no-doc-base-registration
+
+I: Lintian run was successful.
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Changes │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+abyss_1.3.6-1_amd64.changes:
+────────────────────────────
+
+Format: 1.8
+Date: Sun, 08 Sep 2013 11:36:44 +0900
+Source: abyss
+Binary: abyss
+Architecture: source amd64
+Version: 1.3.6-1
+Distribution: unstable
+Urgency: low
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ abyss - de novo, parallel, sequence assembler for short reads
+Closes: 702440 722072
+Changes:
+ abyss (1.3.6-1) unstable; urgency=low
+ .
+ * Team upload (Closes: #722072).
+ e05ee57 Imported Upstream version 1.3.5
+ b391f1f Imported Upstream version 1.3.6 (Closes: #702440)
+ 7edc28b Signal the use of git-buildpackage with this configuration file.
+ a3beaac Normalised source package control file with config-model-edit.
+ dd86394 Conforms with Policy version 3.9.4.
+ 71d42ad Normalised VCS URLs.
+Checksums-Sha1:
+ 6b398b746785300c7df189da5eba5c7fa84d2efa 1153 abyss_1.3.6-1.dsc
+ ac5004972c90cedfb116b307dcf051fb30b7a102 678880 abyss_1.3.6.orig.tar.gz
+ 672132adba821fb326a0d97905b9d2a090269053 11516 abyss_1.3.6-1.debian.tar.gz
+ f1301a6d7f7f3ab961264c4e11d3058ad282381d 867230 abyss_1.3.6-1_amd64.deb
+Checksums-Sha256:
+ dd7dd1e42f2bc246f62a2cbbb1f259bad5baa8864ed8a503284ed4555362abe7 1153 abyss_1.3.6-1.dsc
+ 4432a8b5046bdcb548b6f1b22069a6cade4dea26fc6f83ad5467548e4f3e7c95 678880 abyss_1.3.6.orig.tar.gz
+ 8246ebd6c9ba9539ddad05450f7be0bbab5dd6cdb0d8dff2f7a5f54b136b2139 11516 abyss_1.3.6-1.debian.tar.gz
+ 921ca17052122d1aa45bd5c732fd8d14508f88fde8db4ef2c0b6cf624a449938 867230 abyss_1.3.6-1_amd64.deb
+Files:
+ 50ee78df8dd300daede68e2b405bc47e 1153 non-free/science optional abyss_1.3.6-1.dsc
+ 4182c24de5b74a1294fc8f9a452ae743 678880 non-free/science optional abyss_1.3.6.orig.tar.gz
+ cdf33bfd6ae35dc2482c46545ebdbb4b 11516 non-free/science optional abyss_1.3.6-1.debian.tar.gz
+ ee386cc32f08ec888b10f7430ed09565 867230 non-free/science optional abyss_1.3.6-1_amd64.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+abyss_1.3.6-1_amd64.deb
+───────────────────────
+
+ new debian package, version 2.0.
+ size 867230 bytes: control archive=2070 bytes.
+ 883 bytes, 20 lines control
+ 3016 bytes, 49 lines md5sums
+ Package: abyss
+ Version: 1.3.6-1
+ Architecture: amd64
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 3990
+ Depends: make, libc6 (>= 2.14), libgcc1 (>= 1:4.1.1), libgomp1 (>= 4.2.1), libopenmpi1.6, libstdc++6 (>= 4.4.0), perl
+ Suggests: openmpi-bin
+ Section: non-free/science
+ Priority: optional
+ Homepage: http://www.bcgsc.ca/platform/bioinfo/software/abyss
+ Description: de novo, parallel, sequence assembler for short reads
+ ABySS is a de novo, parallel, sequence assembler that is designed for
+ short reads. It may be used to assemble genome or transcriptome
+ sequence data. Parallelization is achieved using MPI, OpenMP and
+ pthread.
+ .
+ To cite your use of ABySS, please reference
+ ABySS: A parallel assembler for short read sequence data. Simpson JT,
+ Wong K, Jackman SD, Schein JE, Jones SJ, Birol I. Genome Research,
+ 2009-June.
+
+drwxr-xr-x root/root 0 2013-09-08 12:05 ./
+drwxr-xr-x root/root 0 2013-09-08 12:05 ./usr/
+drwxr-xr-x root/root 0 2013-09-08 12:05 ./usr/share/
+drwxr-xr-x root/root 0 2013-09-08 12:05 ./usr/share/man/
+drwxr-xr-x root/root 0 2013-09-08 12:05 ./usr/share/man/man1/
+-rw-r--r-- root/root 2328 2013-09-08 12:05 ./usr/share/man/man1/abyss-pe.1.gz
+-rw-r--r-- root/root 1178 2013-09-08 12:05 ./usr/share/man/man1/ABYSS.1.gz
+-rw-r--r-- root/root 407 2013-09-08 12:05 ./usr/share/man/man1/abyss-tofastq.1.gz
+drwxr-xr-x root/root 0 2013-09-08 12:05 ./usr/share/doc/
+drwxr-xr-x root/root 0 2013-09-08 12:05 ./usr/share/doc/abyss/
+-rw-r--r-- root/root 10802 2013-08-01 07:23 ./usr/share/doc/abyss/changelog.gz
+-rw-r--r-- root/root 18533 2013-09-08 11:32 ./usr/share/doc/abyss/copyright
+-rw-r--r-- root/root 4445 2013-08-01 07:12 ./usr/share/doc/abyss/README.md.gz
+-rw-r--r-- root/root 1207 2013-09-08 11:38 ./usr/share/doc/abyss/changelog.Debian.gz
+-rw-r--r-- root/root 16221 2013-08-01 08:39 ./usr/share/doc/abyss/README.html
+-rw-r--r-- root/root 66145 2013-03-08 07:43 ./usr/share/doc/abyss/flowchart.pdf.gz
+-rw-r--r-- root/root 669 2013-09-08 11:23 ./usr/share/doc/abyss/README.Debian
+-rw-r--r-- root/root 704 2013-02-05 06:45 ./usr/share/doc/abyss/README.css
+drwxr-xr-x root/root 0 2013-09-08 12:05 ./usr/lib/
+drwxr-xr-x root/root 0 2013-09-08 12:05 ./usr/lib/abyss/
+-rwxr-xr-x root/root 72536 2013-09-08 12:05 ./usr/lib/abyss/abyss-gc
+-rwxr-xr-x root/root 126016 2013-09-08 12:05 ./usr/lib/abyss/abyss-map
+-rwxr-xr-x root/root 290160 2013-09-08 12:05 ./usr/lib/abyss/PopBubbles
+-rwxr-xr-x root/root 4455 2013-09-08 12:05 ./usr/lib/abyss/abyss-samtoafg
+-rwxr-xr-x root/root 265672 2013-09-08 12:05 ./usr/lib/abyss/ABYSS-P
+-rwxr-xr-x root/root 76768 2013-09-08 12:05 ./usr/lib/abyss/abyss-mergepairs
+-rwxr-xr-x root/root 97216 2013-09-08 12:05 ./usr/lib/abyss/DAssembler
+-rwxr-xr-x root/root 113632 2013-09-08 12:05 ./usr/lib/abyss/SimpleGraph
+-rwxr-xr-x root/root 109600 2013-09-08 12:05 ./usr/lib/abyss/AdjList
+-rwxr-xr-x root/root 1192 2013-09-08 12:05 ./usr/lib/abyss/abyss-bowtie2
+-rwxr-xr-x root/root 138272 2013-09-08 12:05 ./usr/lib/abyss/abyss-scaffold
+-rwxr-xr-x root/root 191768 2013-09-08 12:05 ./usr/lib/abyss/KAligner
+-rwxr-xr-x root/root 93144 2013-09-08 12:05 ./usr/lib/abyss/ParseAligns
+-rwxr-xr-x root/root 84944 2013-09-08 12:05 ./usr/lib/abyss/DistanceEst
+-rwxr-xr-x root/root 113544 2013-09-08 12:05 ./usr/lib/abyss/PathOverlap
+-rwxr-xr-x root/root 286040 2013-09-08 12:05 ./usr/lib/abyss/PathConsensus
+-rwxr-xr-x root/root 121768 2013-09-08 12:05 ./usr/lib/abyss/abyss-todot
+-rwxr-xr-x root/root 84848 2013-09-08 12:05 ./usr/lib/abyss/abyss-index
+-rwxr-xr-x root/root 84960 2013-09-08 12:05 ./usr/lib/abyss/abyss-fixmate
+-rwxr-xr-x root/root 220440 2013-09-08 12:05 ./usr/lib/abyss/ABYSS
+-rwxr-xr-x root/root 187528 2013-09-08 12:05 ./usr/lib/abyss/abyss-align
+-rwxr-xr-x root/root 88968 2013-09-08 12:05 ./usr/lib/abyss/abyss-junction
+-rwxr-xr-x root/root 1135 2013-09-08 12:05 ./usr/lib/abyss/abyss-bowtie
+-rwxr-xr-x root/root 1208 2013-09-08 12:05 ./usr/lib/abyss/abyss-bwa
+-rwxr-xr-x root/root 11740 2013-09-08 12:05 ./usr/lib/abyss/abyss-pe
+-rwxr-xr-x root/root 1280 2013-09-08 12:05 ./usr/lib/abyss/abyss-fatoagp
+-rwxr-xr-x root/root 154784 2013-09-08 12:05 ./usr/lib/abyss/MergeContigs
+-rwxr-xr-x root/root 60296 2013-09-08 12:05 ./usr/lib/abyss/abyss-tofastq
+-rwxr-xr-x root/root 125832 2013-09-08 12:05 ./usr/lib/abyss/MergePaths
+-rwxr-xr-x root/root 105392 2013-09-08 12:05 ./usr/lib/abyss/abyss-layout
+-rwxr-xr-x root/root 154752 2013-09-08 12:05 ./usr/lib/abyss/Overlap
+-rwxr-xr-x root/root 113576 2013-09-08 12:05 ./usr/lib/abyss/abyss-filtergraph
+-rwxr-xr-x root/root 1362 2013-09-08 12:05 ./usr/lib/abyss/abyss-bwasw
+-rwxr-xr-x root/root 39 2013-09-08 12:05 ./usr/lib/abyss/abyss-kaligner
+-rwxr-xr-x root/root 72688 2013-09-08 12:05 ./usr/lib/abyss/Consensus
+-rwxr-xr-x root/root 171208 2013-09-08 12:05 ./usr/lib/abyss/abyss-overlap
+-rwxr-xr-x root/root 76768 2013-09-08 12:05 ./usr/lib/abyss/abyss-fac
+drwxr-xr-x root/root 0 2013-09-08 12:05 ./usr/bin/
+-rwxr-xr-x root/root 11740 2013-09-08 12:05 ./usr/bin/abyss-pe
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Cleanup │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /«BUILDDIR»
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages will be REMOVED:
+ adduser* autotools-dev* bsdmainutils* debhelper* diffstat* file* gettext*
+ gettext-base* groff-base* hardening-includes* intltool-debian*
+ libapt-pkg-perl* libarchive-zip-perl* libasprintf0c2* libboost-graph-dev*
+ libboost-graph1.54-dev* libboost-graph1.54.0* libboost-regex1.54.0*
+ libboost-serialization1.54-dev* libboost-serialization1.54.0*
+ libboost-test1.54-dev* libboost-test1.54.0* libboost1.54-dev*
+ libclass-accessor-perl* libclone-perl* libcr0* libcroco3*
+ libdigest-hmac-perl* libemail-valid-perl* libffi6* libfile-basedir-perl*
+ libgfortran3* libglib2.0-0* libhwloc-dev* libhwloc5* libibverbs-dev*
+ libibverbs1* libicu48* libio-pty-perl* libio-socket-inet6-perl*
+ libio-socket-ssl-perl* libio-string-perl* libipc-run-perl*
+ liblist-moreutils-perl* libltdl7* libmagic1* libmailtools-perl*
+ libnet-dns-perl* libnet-domain-tld-perl* libnet-ip-perl*
+ libnet-smtp-ssl-perl* libnet-ssleay-perl* libnuma1* libopenmpi-dev*
+ libopenmpi1.6* libparse-debianchangelog-perl* libpci-dev* libpci3*
+ libpipeline1* libsocket6-perl* libsparsehash-dev* libssl1.0.0*
+ libsub-name-perl* libtext-levenshtein-perl* libtorque2* libunistring0*
+ liburi-perl* libxml2* libxml2-dev* lintian* man-db* netbase* openmpi-common*
+ patchutils* po-debconf* sbuild-build-depends-abyss-dummy*
+ sbuild-build-depends-core-dummy* sbuild-build-depends-lintian-dummy*
+ t1utils* zlib1g-dev*
+0 upgraded, 0 newly installed, 80 to remove and 0 not upgraded.
+After this operation, 188 MB disk space will be freed.
+(Reading database ... 25804 files and directories currently installed.)
+Removing sbuild-build-depends-abyss-dummy ...
+Removing libopenmpi-dev ...
+Removing libopenmpi1.6 ...
+Purging configuration files for libopenmpi1.6 ...
+Removing libibverbs-dev ...
+Removing libibverbs1 ...
+Purging configuration files for libibverbs1 ...
+Removing adduser ...
+Purging configuration files for adduser ...
+Removing autotools-dev ...
+Removing sbuild-build-depends-lintian-dummy ...
+Removing lintian ...
+Purging configuration files for lintian ...
+Removing debhelper ...
+Removing man-db ...
+Purging configuration files for man-db ...
+Removing bsdmainutils ...
+Purging configuration files for bsdmainutils ...
+Removing diffstat ...
+Removing file ...
+Removing po-debconf ...
+Removing intltool-debian ...
+Removing gettext ...
+Removing gettext-base ...
+Removing groff-base ...
+Purging configuration files for groff-base ...
+Removing hardening-includes ...
+Removing libapt-pkg-perl ...
+Removing libarchive-zip-perl ...
+Removing libasprintf0c2:amd64 ...
+Removing libboost-graph-dev ...
+Removing libboost-graph1.54-dev ...
+Removing libboost-graph1.54.0 ...
+Purging configuration files for libboost-graph1.54.0 ...
+Removing libboost-regex1.54.0 ...
+Purging configuration files for libboost-regex1.54.0 ...
+Removing libboost-serialization1.54-dev ...
+Removing libboost-serialization1.54.0 ...
+Purging configuration files for libboost-serialization1.54.0 ...
+Removing libboost-test1.54-dev ...
+Removing libboost-test1.54.0 ...
+Purging configuration files for libboost-test1.54.0 ...
+Removing libboost1.54-dev ...
+Removing libparse-debianchangelog-perl ...
+Removing libclass-accessor-perl ...
+Removing libclone-perl ...
+Removing libcr0 ...
+Purging configuration files for libcr0 ...
+Removing libcroco3:amd64 ...
+Purging configuration files for libcroco3:amd64 ...
+Removing libemail-valid-perl ...
+Removing libnet-dns-perl ...
+Removing libdigest-hmac-perl ...
+Removing libglib2.0-0:amd64 ...
+Purging configuration files for libglib2.0-0:amd64 ...
+Removing libffi6:amd64 ...
+Purging configuration files for libffi6:amd64 ...
+Removing libfile-basedir-perl ...
+Removing libgfortran3:amd64 ...
+Purging configuration files for libgfortran3:amd64 ...
+Removing libhwloc-dev:amd64 ...
+Removing libhwloc5:amd64 ...
+Purging configuration files for libhwloc5:amd64 ...
+Removing libicu48:amd64 ...
+Purging configuration files for libicu48:amd64 ...
+Removing libipc-run-perl ...
+Removing libio-pty-perl ...
+Removing libio-socket-inet6-perl ...
+Removing libmailtools-perl ...
+Removing libnet-smtp-ssl-perl ...
+Removing libio-socket-ssl-perl ...
+Removing libio-string-perl ...
+Removing liblist-moreutils-perl ...
+Removing libltdl7:amd64 ...
+Purging configuration files for libltdl7:amd64 ...
+Removing libmagic1:amd64 ...
+Purging configuration files for libmagic1:amd64 ...
+Removing libnet-domain-tld-perl ...
+Removing libnet-ip-perl ...
+Removing libnet-ssleay-perl ...
+Removing libnuma1 ...
+Purging configuration files for libnuma1 ...
+Removing libpci-dev ...
+Removing libpci3:amd64 ...
+Purging configuration files for libpci3:amd64 ...
+Removing libpipeline1:amd64 ...
+Purging configuration files for libpipeline1:amd64 ...
+Removing libsocket6-perl ...
+Removing libsparsehash-dev ...
+Removing libssl1.0.0:amd64 ...
+Purging configuration files for libssl1.0.0:amd64 ...
+Removing libsub-name-perl ...
+Removing libtext-levenshtein-perl ...
+Removing libtorque2 ...
+Purging configuration files for libtorque2 ...
+Removing libunistring0:amd64 ...
+Purging configuration files for libunistring0:amd64 ...
+Removing liburi-perl ...
+Removing libxml2-dev:amd64 ...
+Removing libxml2:amd64 ...
+Purging configuration files for libxml2:amd64 ...
+Removing netbase ...
+Purging configuration files for netbase ...
+Removing openmpi-common ...
+Removing patchutils ...
+Removing sbuild-build-depends-core-dummy ...
+Removing t1utils ...
+Removing zlib1g-dev:amd64 ...
+Processing triggers for libc-bin ...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Build Architecture: amd64
+Build-Space: 188924
+Build-Time: 267
+Distribution: unstable
+Host Architecture: amd64
+Install-Time: 28
+Job: abyss_1.3.6-1.dsc
+Lintian: pass
+Machine Architecture: amd64
+Package: abyss
+Package-Time: 301
+Source-Version: 1.3.6-1
+Space: 188924
+Status: successful
+Version: 1.3.6-1
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20130908-1205
+Build needed 00:05:01, 188924k disc space
diff --git a/upload b/upload
new file mode 100644
index 0000000..0af1adc
--- /dev/null
+++ b/upload
@@ -0,0 +1,6 @@
+u abyss_1.3.6-1.debian.tar.gz ftp.upload.debian.org Sun Sep 8 12:13:47 2013
+u abyss_1.3.6-1_amd64.deb ftp.upload.debian.org Sun Sep 8 12:13:49 2013
+u abyss_1.3.6-1.dsc ftp.upload.debian.org Sun Sep 8 12:13:50 2013
+u abyss_1.3.6.orig.tar.gz ftp.upload.debian.org Sun Sep 8 12:13:53 2013
+u abyss_1.3.6-1_amd64.changes ftp.upload.debian.org Sun Sep 8 12:13:54 2013
+s abyss_1.3.6-1_amd64.changes ftp.upload.debian.org Sun Sep 8 12:13:54 2013
--
Alioth's /git/debian-med/git-commit-notice on /srv/git.debian.org/git/debian-med/abyss.git
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