abyss →
2.0.2-2 →
armhf → 2016-12-22 08:21:04
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on bm-wb-01
+==============================================================================+
| abyss 2.0.2-2 (armhf) Thu, 22 Dec 2016 07:26:23 +0000 |
+==============================================================================+
Package: abyss
Version: 2.0.2-2
Source Version: 2.0.2-2
Distribution: stretch-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/run/schroot/mount/stretch-staging-armhf-sbuild-d5cc048b-f479-40b2-b850-3223082e9e9b' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private stretch-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private stretch-staging/main Sources [9624 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf Packages [11.6 MB]
Fetched 21.2 MB in 23s (913 kB/s)
Reading package lists...
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'abyss' packaging is maintained in the 'Git' version control system at:
https://anonscm.debian.org/git/debian-med/abyss.git
Please use:
git clone https://anonscm.debian.org/git/debian-med/abyss.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 1047 kB of source archives.
Get:1 http://172.17.0.1/private stretch-staging/main abyss 2.0.2-2 (dsc) [2083 B]
Get:2 http://172.17.0.1/private stretch-staging/main abyss 2.0.2-2 (tar) [1036 kB]
Get:3 http://172.17.0.1/private stretch-staging/main abyss 2.0.2-2 (diff) [8448 B]
Fetched 1047 kB in 0s (7136 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/abyss-b9hnbU/abyss-2.0.2' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/abyss-b9hnbU' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install build-essential |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-uXY2Mm/apt_archive/sbuild-build-depends-core-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy
dpkg-scanpackages: info: Wrote 1 entries to output Packages file.
gpg: keybox '/<<BUILDDIR>>/resolver-uXY2Mm/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-uXY2Mm/gpg/trustdb.gpg: trustdb created
gpg: key 35506D9A48F77B2E: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 35506D9A48F77B2E: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 35506D9A48F77B2E: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-uXY2Mm/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-uXY2Mm/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-uXY2Mm/apt_archive ./ Release.gpg [370 B]
Ign:3 copy:/<<BUILDDIR>>/resolver-uXY2Mm/apt_archive ./ Release.gpg
Get:4 copy:/<<BUILDDIR>>/resolver-uXY2Mm/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-uXY2Mm/apt_archive ./ Packages [431 B]
Fetched 2107 B in 0s (3409 B/s)
Reading package lists...
W: copy:///<<BUILDDIR>>/resolver-uXY2Mm/apt_archive/./Release.gpg: The key(s) in the keyring /etc/apt/trusted.gpg.d/sbuild-build-depends-archive.gpg are ignored as the file is not readable by user '_apt' executing apt-key.
W: GPG error: copy:/<<BUILDDIR>>/resolver-uXY2Mm/apt_archive ./ Release: The following signatures couldn't be verified because the public key is not available: NO_PUBKEY 35506D9A48F77B2E
Reading package lists...
Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
fuse2fs gnupg-l10n libfuse2 manpages
Use 'apt autoremove' to remove them.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 36 not upgraded.
Need to get 770 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-uXY2Mm/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [770 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 770 B in 0s (0 B/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12988 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper (>= 10), dh-autoreconf, python-markdown, libboost-graph-dev, libopenmpi-dev, libsparsehash-dev, libtext-multimarkdown-perl, libgtest-dev, libsqlite3-dev
Filtered Build-Depends: debhelper (>= 10), dh-autoreconf, python-markdown, libboost-graph-dev, libopenmpi-dev, libsparsehash-dev, libtext-multimarkdown-perl, libgtest-dev, libsqlite3-dev
dpkg-deb: building package 'sbuild-build-depends-abyss-dummy' in '/<<BUILDDIR>>/resolver-uXY2Mm/apt_archive/sbuild-build-depends-abyss-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-abyss-dummy sbuild-build-depends-core-dummy
dpkg-scanpackages: info: Wrote 2 entries to output Packages file.
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-uXY2Mm/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-uXY2Mm/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-uXY2Mm/apt_archive ./ Release.gpg [370 B]
Ign:3 copy:/<<BUILDDIR>>/resolver-uXY2Mm/apt_archive ./ Release.gpg
Get:4 copy:/<<BUILDDIR>>/resolver-uXY2Mm/apt_archive ./ Sources [566 B]
Get:5 copy:/<<BUILDDIR>>/resolver-uXY2Mm/apt_archive ./ Packages [648 B]
Fetched 2547 B in 0s (4036 B/s)
Reading package lists...
W: copy:///<<BUILDDIR>>/resolver-uXY2Mm/apt_archive/./Release.gpg: The key(s) in the keyring /etc/apt/trusted.gpg.d/sbuild-build-depends-archive.gpg are ignored as the file is not readable by user '_apt' executing apt-key.
W: GPG error: copy:/<<BUILDDIR>>/resolver-uXY2Mm/apt_archive ./ Release: The following signatures couldn't be verified because the public key is not available: NO_PUBKEY 35506D9A48F77B2E
Reading package lists...
Install abyss build dependencies (apt-based resolver)
-----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
fuse2fs gnupg-l10n libfuse2 manpages
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils debhelper
dh-autoreconf dh-strip-nondeterminism file gettext gettext-base googletest
groff-base intltool-debian libarchive-zip-perl libboost-chrono1.62.0
libboost-graph-dev libboost-graph1.62-dev libboost-graph1.62.0
libboost-regex1.62.0 libboost-serialization1.62-dev
libboost-serialization1.62.0 libboost-system1.62.0 libboost-test1.62-dev
libboost-test1.62.0 libboost-timer1.62.0 libboost1.62-dev libbsd0 libcroco3
libexpat1 libffi6 libfile-stripnondeterminism-perl libgfortran3 libglib2.0-0
libgtest-dev libhtml-parser-perl libhtml-tagset-perl libhwloc-dev
libhwloc-plugins libhwloc5 libibverbs-dev libibverbs1 libicu57 libltdl-dev
libltdl7 libmagic-mgc libmagic1 libnl-3-200 libnl-route-3-200 libopenmpi-dev
libopenmpi2 libpciaccess0 libpipeline1 libpython-stdlib libpython2.7-minimal
libpython2.7-stdlib libsigsegv2 libsparsehash-dev libsqlite3-dev libssl1.1
libtext-markdown-perl libtext-multimarkdown-perl libtimedate-perl libtool
libunistring0 liburi-perl libxml2 m4 man-db mime-support ocl-icd-libopencl1
openmpi-common po-debconf python python-markdown python-minimal python2.7
python2.7-minimal
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff graphviz
libboost1.62-doc libboost-atomic1.62-dev libboost-chrono1.62-dev
libboost-context1.62-dev libboost-coroutine1.62-dev
libboost-date-time1.62-dev libboost-exception1.62-dev libboost-fiber1.62-dev
libboost-filesystem1.62-dev libboost-graph-parallel1.62-dev
libboost-iostreams1.62-dev libboost-locale1.62-dev libboost-log1.62-dev
libboost-math1.62-dev libboost-mpi1.62-dev libboost-mpi-python1.62-dev
libboost-program-options1.62-dev libboost-python1.62-dev
libboost-random1.62-dev libboost-regex1.62-dev libboost-signals1.62-dev
libboost-system1.62-dev libboost-thread1.62-dev libboost-timer1.62-dev
libboost-type-erasure1.62-dev libboost-wave1.62-dev libboost1.62-tools-dev
libmpfrc++-dev libntl-dev libdata-dump-perl libhwloc-contrib-plugins
libtool-doc openmpi-doc pciutils sqlite3-doc gfortran | fortran95-compiler
gcj-jdk libwww-perl less www-browser opencl-icd libmail-box-perl python-doc
python-tk python-markdown-doc python2.7-doc binfmt-support
Recommended packages:
curl | wget | lynx-cur libglib2.0-data shared-mime-info xdg-user-dirs
libhttp-message-perl openmpi-bin xml-core libmail-sendmail-perl
python-pygments python-yaml
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils debhelper
dh-autoreconf dh-strip-nondeterminism file gettext gettext-base googletest
groff-base intltool-debian libarchive-zip-perl libboost-chrono1.62.0
libboost-graph-dev libboost-graph1.62-dev libboost-graph1.62.0
libboost-regex1.62.0 libboost-serialization1.62-dev
libboost-serialization1.62.0 libboost-system1.62.0 libboost-test1.62-dev
libboost-test1.62.0 libboost-timer1.62.0 libboost1.62-dev libbsd0 libcroco3
libexpat1 libffi6 libfile-stripnondeterminism-perl libgfortran3 libglib2.0-0
libgtest-dev libhtml-parser-perl libhtml-tagset-perl libhwloc-dev
libhwloc-plugins libhwloc5 libibverbs-dev libibverbs1 libicu57 libltdl-dev
libltdl7 libmagic-mgc libmagic1 libnl-3-200 libnl-route-3-200 libopenmpi-dev
libopenmpi2 libpciaccess0 libpipeline1 libpython-stdlib libpython2.7-minimal
libpython2.7-stdlib libsigsegv2 libsparsehash-dev libsqlite3-dev libssl1.1
libtext-markdown-perl libtext-multimarkdown-perl libtimedate-perl libtool
libunistring0 liburi-perl libxml2 m4 man-db mime-support ocl-icd-libopencl1
openmpi-common po-debconf python python-markdown python-minimal python2.7
python2.7-minimal sbuild-build-depends-abyss-dummy
0 upgraded, 79 newly installed, 0 to remove and 36 not upgraded.
Need to get 38.3 MB/38.3 MB of archives.
After this operation, 236 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-uXY2Mm/apt_archive ./ sbuild-build-depends-abyss-dummy 0.invalid.0 [850 B]
Get:2 http://172.17.0.1/private stretch-staging/main armhf groff-base armhf 1.22.3-8 [1087 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf libbsd0 armhf 0.8.3-1 [89.0 kB]
Get:4 http://172.17.0.1/private stretch-staging/main armhf bsdmainutils armhf 9.0.12 [178 kB]
Get:5 http://172.17.0.1/private stretch-staging/main armhf libpipeline1 armhf 1.4.1-2 [23.7 kB]
Get:6 http://172.17.0.1/private stretch-staging/main armhf man-db armhf 2.7.5-2 [971 kB]
Get:7 http://172.17.0.1/private stretch-staging/main armhf libpython2.7-minimal armhf 2.7.13~rc1-1 [389 kB]
Get:8 http://172.17.0.1/private stretch-staging/main armhf python2.7-minimal armhf 2.7.13~rc1-1 [1177 kB]
Get:9 http://172.17.0.1/private stretch-staging/main armhf python-minimal armhf 2.7.11-2 [40.3 kB]
Get:10 http://172.17.0.1/private stretch-staging/main armhf mime-support all 3.60 [36.7 kB]
Get:11 http://172.17.0.1/private stretch-staging/main armhf libexpat1 armhf 2.2.0-1 [61.7 kB]
Get:12 http://172.17.0.1/private stretch-staging/main armhf libssl1.1 armhf 1.1.0c-2 [1101 kB]
Get:13 http://172.17.0.1/private stretch-staging/main armhf libpython2.7-stdlib armhf 2.7.13~rc1-1 [1829 kB]
Get:14 http://172.17.0.1/private stretch-staging/main armhf python2.7 armhf 2.7.13~rc1-1 [285 kB]
Get:15 http://172.17.0.1/private stretch-staging/main armhf libpython-stdlib armhf 2.7.11-2 [19.8 kB]
Get:16 http://172.17.0.1/private stretch-staging/main armhf python armhf 2.7.11-2 [153 kB]
Get:17 http://172.17.0.1/private stretch-staging/main armhf libmagic-mgc armhf 1:5.29-1 [219 kB]
Get:18 http://172.17.0.1/private stretch-staging/main armhf libmagic1 armhf 1:5.29-1 [104 kB]
Get:19 http://172.17.0.1/private stretch-staging/main armhf file armhf 1:5.29-1 [63.3 kB]
Get:20 http://172.17.0.1/private stretch-staging/main armhf gettext-base armhf 0.19.8.1-1 [117 kB]
Get:21 http://172.17.0.1/private stretch-staging/main armhf libicu57 armhf 57.1-5 [7427 kB]
Get:22 http://172.17.0.1/private stretch-staging/main armhf libxml2 armhf 2.9.4+dfsg1-2.1 [804 kB]
Get:23 http://172.17.0.1/private stretch-staging/main armhf libsigsegv2 armhf 2.10-5 [28.4 kB]
Get:24 http://172.17.0.1/private stretch-staging/main armhf m4 armhf 1.4.17-5 [239 kB]
Get:25 http://172.17.0.1/private stretch-staging/main armhf autoconf all 2.69-10 [338 kB]
Get:26 http://172.17.0.1/private stretch-staging/main armhf autotools-dev all 20161112.1 [73.4 kB]
Get:27 http://172.17.0.1/private stretch-staging/main armhf automake all 1:1.15-5 [733 kB]
Get:28 http://172.17.0.1/private stretch-staging/main armhf autopoint all 0.19.8.1-1 [433 kB]
Get:29 http://172.17.0.1/private stretch-staging/main armhf libtool all 2.4.6-2 [545 kB]
Get:30 http://172.17.0.1/private stretch-staging/main armhf dh-autoreconf all 12 [15.8 kB]
Get:31 http://172.17.0.1/private stretch-staging/main armhf libarchive-zip-perl all 1.59-1 [95.5 kB]
Get:32 http://172.17.0.1/private stretch-staging/main armhf libfile-stripnondeterminism-perl all 0.028-1 [14.6 kB]
Get:33 http://172.17.0.1/private stretch-staging/main armhf libtimedate-perl all 2.3000-2 [42.2 kB]
Get:34 http://172.17.0.1/private stretch-staging/main armhf dh-strip-nondeterminism all 0.028-1 [9020 B]
Get:35 http://172.17.0.1/private stretch-staging/main armhf libglib2.0-0 armhf 2.50.2-2 [2527 kB]
Get:36 http://172.17.0.1/private stretch-staging/main armhf libcroco3 armhf 0.6.11-2 [131 kB]
Get:37 http://172.17.0.1/private stretch-staging/main armhf libunistring0 armhf 0.9.6+really0.9.3-0.1 [252 kB]
Get:38 http://172.17.0.1/private stretch-staging/main armhf gettext armhf 0.19.8.1-1 [1433 kB]
Get:39 http://172.17.0.1/private stretch-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:40 http://172.17.0.1/private stretch-staging/main armhf po-debconf all 1.0.20 [247 kB]
Get:41 http://172.17.0.1/private stretch-staging/main armhf debhelper all 10.2.2 [826 kB]
Get:42 http://172.17.0.1/private stretch-staging/main armhf googletest armhf 1.8.0-3 [652 kB]
Get:43 http://172.17.0.1/private stretch-staging/main armhf libboost-system1.62.0 armhf 1.62.0+dfsg-4 [32.1 kB]
Get:44 http://172.17.0.1/private stretch-staging/main armhf libboost-chrono1.62.0 armhf 1.62.0+dfsg-4 [35.7 kB]
Get:45 http://172.17.0.1/private stretch-staging/main armhf libboost1.62-dev armhf 1.62.0+dfsg-4 [7009 kB]
Get:46 http://172.17.0.1/private stretch-staging/main armhf libboost-regex1.62.0 armhf 1.62.0+dfsg-4 [232 kB]
Get:47 http://172.17.0.1/private stretch-staging/main armhf libboost-graph1.62.0 armhf 1.62.0+dfsg-4 [102 kB]
Get:48 http://172.17.0.1/private stretch-staging/main armhf libboost-serialization1.62.0 armhf 1.62.0+dfsg-4 [105 kB]
Get:49 http://172.17.0.1/private stretch-staging/main armhf libboost-serialization1.62-dev armhf 1.62.0+dfsg-4 [170 kB]
Get:50 http://172.17.0.1/private stretch-staging/main armhf libboost-timer1.62.0 armhf 1.62.0+dfsg-4 [34.2 kB]
Get:51 http://172.17.0.1/private stretch-staging/main armhf libboost-test1.62.0 armhf 1.62.0+dfsg-4 [223 kB]
Get:52 http://172.17.0.1/private stretch-staging/main armhf libboost-test1.62-dev armhf 1.62.0+dfsg-4 [287 kB]
Get:53 http://172.17.0.1/private stretch-staging/main armhf libboost-graph1.62-dev armhf 1.62.0+dfsg-4 [121 kB]
Get:54 http://172.17.0.1/private stretch-staging/main armhf libboost-graph-dev armhf 1.62.0.1 [3510 B]
Get:55 http://172.17.0.1/private stretch-staging/main armhf libgfortran3 armhf 6.2.1-5+rpi1 [166 kB]
Get:56 http://172.17.0.1/private stretch-staging/main armhf libgtest-dev armhf 1.8.0-3 [4566 B]
Get:57 http://172.17.0.1/private stretch-staging/main armhf libhtml-tagset-perl all 3.20-3 [12.7 kB]
Get:58 http://172.17.0.1/private stretch-staging/main armhf liburi-perl all 1.71-1 [88.6 kB]
Get:59 http://172.17.0.1/private stretch-staging/main armhf libhtml-parser-perl armhf 3.72-3 [101 kB]
Get:60 http://172.17.0.1/private stretch-staging/main armhf libltdl7 armhf 2.4.6-2 [386 kB]
Get:61 http://172.17.0.1/private stretch-staging/main armhf libltdl-dev armhf 2.4.6-2 [159 kB]
Get:62 http://172.17.0.1/private stretch-staging/main armhf libnl-3-200 armhf 3.2.27-1 [53.4 kB]
Get:63 http://172.17.0.1/private stretch-staging/main armhf libnl-route-3-200 armhf 3.2.27-1 [111 kB]
Get:64 http://172.17.0.1/private stretch-staging/main armhf libpciaccess0 armhf 0.13.4-1 [47.4 kB]
Get:65 http://172.17.0.1/private stretch-staging/main armhf libsparsehash-dev all 2.0.2-1 [76.9 kB]
Get:66 http://172.17.0.1/private stretch-staging/main armhf libsqlite3-dev armhf 3.15.2-1 [610 kB]
Get:67 http://172.17.0.1/private stretch-staging/main armhf libtext-markdown-perl all 1.000031-2 [34.4 kB]
Get:68 http://172.17.0.1/private stretch-staging/main armhf libtext-multimarkdown-perl all 1.000035-1 [29.4 kB]
Get:69 http://172.17.0.1/private stretch-staging/main armhf python-markdown all 2.6.7-1 [56.4 kB]
Get:70 http://172.17.0.1/private stretch-staging/main armhf libhwloc5 armhf 1.11.5-1+rpi1 [83.2 kB]
Get:71 http://172.17.0.1/private stretch-staging/main armhf libhwloc-dev armhf 1.11.5-1+rpi1 [136 kB]
Get:72 http://172.17.0.1/private stretch-staging/main armhf ocl-icd-libopencl1 armhf 2.2.10-2 [34.9 kB]
Get:73 http://172.17.0.1/private stretch-staging/main armhf libhwloc-plugins armhf 1.11.5-1+rpi1 [14.9 kB]
Get:74 http://172.17.0.1/private stretch-staging/main armhf libibverbs1 armhf 1.2.1-2 [35.4 kB]
Get:75 http://172.17.0.1/private stretch-staging/main armhf libibverbs-dev armhf 1.2.1-2 [104 kB]
Get:76 http://172.17.0.1/private stretch-staging/main armhf libopenmpi2 armhf 2.0.1-7 [1623 kB]
Get:77 http://172.17.0.1/private stretch-staging/main armhf openmpi-common all 2.0.1-7 [146 kB]
Get:78 http://172.17.0.1/private stretch-staging/main armhf libopenmpi-dev armhf 2.0.1-7 [997 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 38.3 MB in 4s (9389 kB/s)
Selecting previously unselected package groff-base.
(Reading database ... 12988 files and directories currently installed.)
Preparing to unpack .../00-groff-base_1.22.3-8_armhf.deb ...
Unpacking groff-base (1.22.3-8) ...
Selecting previously unselected package libbsd0:armhf.
Preparing to unpack .../01-libbsd0_0.8.3-1_armhf.deb ...
Unpacking libbsd0:armhf (0.8.3-1) ...
Selecting previously unselected package bsdmainutils.
Preparing to unpack .../02-bsdmainutils_9.0.12_armhf.deb ...
Unpacking bsdmainutils (9.0.12) ...
Selecting previously unselected package libpipeline1:armhf.
Preparing to unpack .../03-libpipeline1_1.4.1-2_armhf.deb ...
Unpacking libpipeline1:armhf (1.4.1-2) ...
Selecting previously unselected package man-db.
Preparing to unpack .../04-man-db_2.7.5-2_armhf.deb ...
Unpacking man-db (2.7.5-2) ...
Selecting previously unselected package libpython2.7-minimal:armhf.
Preparing to unpack .../05-libpython2.7-minimal_2.7.13~rc1-1_armhf.deb ...
Unpacking libpython2.7-minimal:armhf (2.7.13~rc1-1) ...
Selecting previously unselected package python2.7-minimal.
Preparing to unpack .../06-python2.7-minimal_2.7.13~rc1-1_armhf.deb ...
Unpacking python2.7-minimal (2.7.13~rc1-1) ...
Selecting previously unselected package python-minimal.
Preparing to unpack .../07-python-minimal_2.7.11-2_armhf.deb ...
Unpacking python-minimal (2.7.11-2) ...
Selecting previously unselected package mime-support.
Preparing to unpack .../08-mime-support_3.60_all.deb ...
Unpacking mime-support (3.60) ...
Selecting previously unselected package libexpat1:armhf.
Preparing to unpack .../09-libexpat1_2.2.0-1_armhf.deb ...
Unpacking libexpat1:armhf (2.2.0-1) ...
Selecting previously unselected package libffi6:armhf.
Preparing to unpack .../10-libffi6_3.2.1-6_armhf.deb ...
Unpacking libffi6:armhf (3.2.1-6) ...
Selecting previously unselected package libssl1.1:armhf.
Preparing to unpack .../11-libssl1.1_1.1.0c-2_armhf.deb ...
Unpacking libssl1.1:armhf (1.1.0c-2) ...
Selecting previously unselected package libpython2.7-stdlib:armhf.
Preparing to unpack .../12-libpython2.7-stdlib_2.7.13~rc1-1_armhf.deb ...
Unpacking libpython2.7-stdlib:armhf (2.7.13~rc1-1) ...
Selecting previously unselected package python2.7.
Preparing to unpack .../13-python2.7_2.7.13~rc1-1_armhf.deb ...
Unpacking python2.7 (2.7.13~rc1-1) ...
Selecting previously unselected package libpython-stdlib:armhf.
Preparing to unpack .../14-libpython-stdlib_2.7.11-2_armhf.deb ...
Unpacking libpython-stdlib:armhf (2.7.11-2) ...
Setting up libpython2.7-minimal:armhf (2.7.13~rc1-1) ...
Setting up python2.7-minimal (2.7.13~rc1-1) ...
Setting up python-minimal (2.7.11-2) ...
Selecting previously unselected package python.
(Reading database ... 14337 files and directories currently installed.)
Preparing to unpack .../00-python_2.7.11-2_armhf.deb ...
Unpacking python (2.7.11-2) ...
Selecting previously unselected package libmagic-mgc.
Preparing to unpack .../01-libmagic-mgc_1%3a5.29-1_armhf.deb ...
Unpacking libmagic-mgc (1:5.29-1) ...
Selecting previously unselected package libmagic1:armhf.
Preparing to unpack .../02-libmagic1_1%3a5.29-1_armhf.deb ...
Unpacking libmagic1:armhf (1:5.29-1) ...
Selecting previously unselected package file.
Preparing to unpack .../03-file_1%3a5.29-1_armhf.deb ...
Unpacking file (1:5.29-1) ...
Selecting previously unselected package gettext-base.
Preparing to unpack .../04-gettext-base_0.19.8.1-1_armhf.deb ...
Unpacking gettext-base (0.19.8.1-1) ...
Selecting previously unselected package libicu57:armhf.
Preparing to unpack .../05-libicu57_57.1-5_armhf.deb ...
Unpacking libicu57:armhf (57.1-5) ...
Selecting previously unselected package libxml2:armhf.
Preparing to unpack .../06-libxml2_2.9.4+dfsg1-2.1_armhf.deb ...
Unpacking libxml2:armhf (2.9.4+dfsg1-2.1) ...
Selecting previously unselected package libsigsegv2:armhf.
Preparing to unpack .../07-libsigsegv2_2.10-5_armhf.deb ...
Unpacking libsigsegv2:armhf (2.10-5) ...
Selecting previously unselected package m4.
Preparing to unpack .../08-m4_1.4.17-5_armhf.deb ...
Unpacking m4 (1.4.17-5) ...
Selecting previously unselected package autoconf.
Preparing to unpack .../09-autoconf_2.69-10_all.deb ...
Unpacking autoconf (2.69-10) ...
Selecting previously unselected package autotools-dev.
Preparing to unpack .../10-autotools-dev_20161112.1_all.deb ...
Unpacking autotools-dev (20161112.1) ...
Selecting previously unselected package automake.
Preparing to unpack .../11-automake_1%3a1.15-5_all.deb ...
Unpacking automake (1:1.15-5) ...
Selecting previously unselected package autopoint.
Preparing to unpack .../12-autopoint_0.19.8.1-1_all.deb ...
Unpacking autopoint (0.19.8.1-1) ...
Selecting previously unselected package libtool.
Preparing to unpack .../13-libtool_2.4.6-2_all.deb ...
Unpacking libtool (2.4.6-2) ...
Selecting previously unselected package dh-autoreconf.
Preparing to unpack .../14-dh-autoreconf_12_all.deb ...
Unpacking dh-autoreconf (12) ...
Selecting previously unselected package libarchive-zip-perl.
Preparing to unpack .../15-libarchive-zip-perl_1.59-1_all.deb ...
Unpacking libarchive-zip-perl (1.59-1) ...
Selecting previously unselected package libfile-stripnondeterminism-perl.
Preparing to unpack .../16-libfile-stripnondeterminism-perl_0.028-1_all.deb ...
Unpacking libfile-stripnondeterminism-perl (0.028-1) ...
Selecting previously unselected package libtimedate-perl.
Preparing to unpack .../17-libtimedate-perl_2.3000-2_all.deb ...
Unpacking libtimedate-perl (2.3000-2) ...
Selecting previously unselected package dh-strip-nondeterminism.
Preparing to unpack .../18-dh-strip-nondeterminism_0.028-1_all.deb ...
Unpacking dh-strip-nondeterminism (0.028-1) ...
Selecting previously unselected package libglib2.0-0:armhf.
Preparing to unpack .../19-libglib2.0-0_2.50.2-2_armhf.deb ...
Unpacking libglib2.0-0:armhf (2.50.2-2) ...
Selecting previously unselected package libcroco3:armhf.
Preparing to unpack .../20-libcroco3_0.6.11-2_armhf.deb ...
Unpacking libcroco3:armhf (0.6.11-2) ...
Selecting previously unselected package libunistring0:armhf.
Preparing to unpack .../21-libunistring0_0.9.6+really0.9.3-0.1_armhf.deb ...
Unpacking libunistring0:armhf (0.9.6+really0.9.3-0.1) ...
Selecting previously unselected package gettext.
Preparing to unpack .../22-gettext_0.19.8.1-1_armhf.deb ...
Unpacking gettext (0.19.8.1-1) ...
Selecting previously unselected package intltool-debian.
Preparing to unpack .../23-intltool-debian_0.35.0+20060710.4_all.deb ...
Unpacking intltool-debian (0.35.0+20060710.4) ...
Selecting previously unselected package po-debconf.
Preparing to unpack .../24-po-debconf_1.0.20_all.deb ...
Unpacking po-debconf (1.0.20) ...
Selecting previously unselected package debhelper.
Preparing to unpack .../25-debhelper_10.2.2_all.deb ...
Unpacking debhelper (10.2.2) ...
Selecting previously unselected package googletest:armhf.
Preparing to unpack .../26-googletest_1.8.0-3_armhf.deb ...
Unpacking googletest:armhf (1.8.0-3) ...
Selecting previously unselected package libboost-system1.62.0:armhf.
Preparing to unpack .../27-libboost-system1.62.0_1.62.0+dfsg-4_armhf.deb ...
Unpacking libboost-system1.62.0:armhf (1.62.0+dfsg-4) ...
Selecting previously unselected package libboost-chrono1.62.0:armhf.
Preparing to unpack .../28-libboost-chrono1.62.0_1.62.0+dfsg-4_armhf.deb ...
Unpacking libboost-chrono1.62.0:armhf (1.62.0+dfsg-4) ...
Selecting previously unselected package libboost1.62-dev:armhf.
Preparing to unpack .../29-libboost1.62-dev_1.62.0+dfsg-4_armhf.deb ...
Unpacking libboost1.62-dev:armhf (1.62.0+dfsg-4) ...
Selecting previously unselected package libboost-regex1.62.0:armhf.
Preparing to unpack .../30-libboost-regex1.62.0_1.62.0+dfsg-4_armhf.deb ...
Unpacking libboost-regex1.62.0:armhf (1.62.0+dfsg-4) ...
Selecting previously unselected package libboost-graph1.62.0:armhf.
Preparing to unpack .../31-libboost-graph1.62.0_1.62.0+dfsg-4_armhf.deb ...
Unpacking libboost-graph1.62.0:armhf (1.62.0+dfsg-4) ...
Selecting previously unselected package libboost-serialization1.62.0:armhf.
Preparing to unpack .../32-libboost-serialization1.62.0_1.62.0+dfsg-4_armhf.deb ...
Unpacking libboost-serialization1.62.0:armhf (1.62.0+dfsg-4) ...
Selecting previously unselected package libboost-serialization1.62-dev:armhf.
Preparing to unpack .../33-libboost-serialization1.62-dev_1.62.0+dfsg-4_armhf.deb ...
Unpacking libboost-serialization1.62-dev:armhf (1.62.0+dfsg-4) ...
Selecting previously unselected package libboost-timer1.62.0:armhf.
Preparing to unpack .../34-libboost-timer1.62.0_1.62.0+dfsg-4_armhf.deb ...
Unpacking libboost-timer1.62.0:armhf (1.62.0+dfsg-4) ...
Selecting previously unselected package libboost-test1.62.0:armhf.
Preparing to unpack .../35-libboost-test1.62.0_1.62.0+dfsg-4_armhf.deb ...
Unpacking libboost-test1.62.0:armhf (1.62.0+dfsg-4) ...
Selecting previously unselected package libboost-test1.62-dev:armhf.
Preparing to unpack .../36-libboost-test1.62-dev_1.62.0+dfsg-4_armhf.deb ...
Unpacking libboost-test1.62-dev:armhf (1.62.0+dfsg-4) ...
Selecting previously unselected package libboost-graph1.62-dev:armhf.
Preparing to unpack .../37-libboost-graph1.62-dev_1.62.0+dfsg-4_armhf.deb ...
Unpacking libboost-graph1.62-dev:armhf (1.62.0+dfsg-4) ...
Selecting previously unselected package libboost-graph-dev:armhf.
Preparing to unpack .../38-libboost-graph-dev_1.62.0.1_armhf.deb ...
Unpacking libboost-graph-dev:armhf (1.62.0.1) ...
Selecting previously unselected package libgfortran3:armhf.
Preparing to unpack .../39-libgfortran3_6.2.1-5+rpi1_armhf.deb ...
Unpacking libgfortran3:armhf (6.2.1-5+rpi1) ...
Selecting previously unselected package libgtest-dev:armhf.
Preparing to unpack .../40-libgtest-dev_1.8.0-3_armhf.deb ...
Unpacking libgtest-dev:armhf (1.8.0-3) ...
Selecting previously unselected package libhtml-tagset-perl.
Preparing to unpack .../41-libhtml-tagset-perl_3.20-3_all.deb ...
Unpacking libhtml-tagset-perl (3.20-3) ...
Selecting previously unselected package liburi-perl.
Preparing to unpack .../42-liburi-perl_1.71-1_all.deb ...
Unpacking liburi-perl (1.71-1) ...
Selecting previously unselected package libhtml-parser-perl.
Preparing to unpack .../43-libhtml-parser-perl_3.72-3_armhf.deb ...
Unpacking libhtml-parser-perl (3.72-3) ...
Selecting previously unselected package libltdl7:armhf.
Preparing to unpack .../44-libltdl7_2.4.6-2_armhf.deb ...
Unpacking libltdl7:armhf (2.4.6-2) ...
Selecting previously unselected package libltdl-dev:armhf.
Preparing to unpack .../45-libltdl-dev_2.4.6-2_armhf.deb ...
Unpacking libltdl-dev:armhf (2.4.6-2) ...
Selecting previously unselected package libnl-3-200:armhf.
Preparing to unpack .../46-libnl-3-200_3.2.27-1_armhf.deb ...
Unpacking libnl-3-200:armhf (3.2.27-1) ...
Selecting previously unselected package libnl-route-3-200:armhf.
Preparing to unpack .../47-libnl-route-3-200_3.2.27-1_armhf.deb ...
Unpacking libnl-route-3-200:armhf (3.2.27-1) ...
Selecting previously unselected package libpciaccess0:armhf.
Preparing to unpack .../48-libpciaccess0_0.13.4-1_armhf.deb ...
Unpacking libpciaccess0:armhf (0.13.4-1) ...
Selecting previously unselected package libsparsehash-dev.
Preparing to unpack .../49-libsparsehash-dev_2.0.2-1_all.deb ...
Unpacking libsparsehash-dev (2.0.2-1) ...
Selecting previously unselected package libsqlite3-dev:armhf.
Preparing to unpack .../50-libsqlite3-dev_3.15.2-1_armhf.deb ...
Unpacking libsqlite3-dev:armhf (3.15.2-1) ...
Selecting previously unselected package libtext-markdown-perl.
Preparing to unpack .../51-libtext-markdown-perl_1.000031-2_all.deb ...
Unpacking libtext-markdown-perl (1.000031-2) ...
Selecting previously unselected package libtext-multimarkdown-perl.
Preparing to unpack .../52-libtext-multimarkdown-perl_1.000035-1_all.deb ...
Unpacking libtext-multimarkdown-perl (1.000035-1) ...
Selecting previously unselected package python-markdown.
Preparing to unpack .../53-python-markdown_2.6.7-1_all.deb ...
Unpacking python-markdown (2.6.7-1) ...
Selecting previously unselected package libhwloc5:armhf.
Preparing to unpack .../54-libhwloc5_1.11.5-1+rpi1_armhf.deb ...
Unpacking libhwloc5:armhf (1.11.5-1+rpi1) ...
Selecting previously unselected package libhwloc-dev:armhf.
Preparing to unpack .../55-libhwloc-dev_1.11.5-1+rpi1_armhf.deb ...
Unpacking libhwloc-dev:armhf (1.11.5-1+rpi1) ...
Selecting previously unselected package ocl-icd-libopencl1:armhf.
Preparing to unpack .../56-ocl-icd-libopencl1_2.2.10-2_armhf.deb ...
Unpacking ocl-icd-libopencl1:armhf (2.2.10-2) ...
Selecting previously unselected package libhwloc-plugins.
Preparing to unpack .../57-libhwloc-plugins_1.11.5-1+rpi1_armhf.deb ...
Unpacking libhwloc-plugins (1.11.5-1+rpi1) ...
Selecting previously unselected package libibverbs1.
Preparing to unpack .../58-libibverbs1_1.2.1-2_armhf.deb ...
Unpacking libibverbs1 (1.2.1-2) ...
Selecting previously unselected package libibverbs-dev.
Preparing to unpack .../59-libibverbs-dev_1.2.1-2_armhf.deb ...
Unpacking libibverbs-dev (1.2.1-2) ...
Selecting previously unselected package libopenmpi2.
Preparing to unpack .../60-libopenmpi2_2.0.1-7_armhf.deb ...
Unpacking libopenmpi2 (2.0.1-7) ...
Selecting previously unselected package openmpi-common.
Preparing to unpack .../61-openmpi-common_2.0.1-7_all.deb ...
Unpacking openmpi-common (2.0.1-7) ...
Selecting previously unselected package libopenmpi-dev.
Preparing to unpack .../62-libopenmpi-dev_2.0.1-7_armhf.deb ...
Unpacking libopenmpi-dev (2.0.1-7) ...
Selecting previously unselected package sbuild-build-depends-abyss-dummy.
Preparing to unpack .../63-sbuild-build-depends-abyss-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-abyss-dummy (0.invalid.0) ...
Setting up libhtml-tagset-perl (3.20-3) ...
Setting up libboost-serialization1.62.0:armhf (1.62.0+dfsg-4) ...
Setting up libsparsehash-dev (2.0.2-1) ...
Setting up libexpat1:armhf (2.2.0-1) ...
Setting up libarchive-zip-perl (1.59-1) ...
Setting up mime-support (3.60) ...
Setting up libtext-markdown-perl (1.000031-2) ...
Setting up libboost1.62-dev:armhf (1.62.0+dfsg-4) ...
Setting up libsqlite3-dev:armhf (3.15.2-1) ...
Setting up libtimedate-perl (2.3000-2) ...
Setting up libsigsegv2:armhf (2.10-5) ...
Setting up libgfortran3:armhf (6.2.1-5+rpi1) ...
Setting up groff-base (1.22.3-8) ...
Setting up gettext-base (0.19.8.1-1) ...
Setting up libpipeline1:armhf (1.4.1-2) ...
Setting up m4 (1.4.17-5) ...
Setting up libicu57:armhf (57.1-5) ...
Setting up libbsd0:armhf (0.8.3-1) ...
Setting up libboost-serialization1.62-dev:armhf (1.62.0+dfsg-4) ...
Setting up libxml2:armhf (2.9.4+dfsg1-2.1) ...
Setting up libmagic-mgc (1:5.29-1) ...
Setting up libmagic1:armhf (1:5.29-1) ...
Setting up openmpi-common (2.0.1-7) ...
Processing triggers for libc-bin (2.24-7+rpi1) ...
Setting up autotools-dev (20161112.1) ...
Setting up libunistring0:armhf (0.9.6+really0.9.3-0.1) ...
Setting up liburi-perl (1.71-1) ...
Setting up libssl1.1:armhf (1.1.0c-2) ...
Setting up libltdl7:armhf (2.4.6-2) ...
Setting up libhtml-parser-perl (3.72-3) ...
Setting up libpciaccess0:armhf (0.13.4-1) ...
Setting up libffi6:armhf (3.2.1-6) ...
Setting up ocl-icd-libopencl1:armhf (2.2.10-2) ...
Setting up bsdmainutils (9.0.12) ...
update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode
Setting up libnl-3-200:armhf (3.2.27-1) ...
Setting up libpython2.7-stdlib:armhf (2.7.13~rc1-1) ...
Setting up autopoint (0.19.8.1-1) ...
Setting up libboost-system1.62.0:armhf (1.62.0+dfsg-4) ...
Setting up libfile-stripnondeterminism-perl (0.028-1) ...
Setting up libltdl-dev:armhf (2.4.6-2) ...
Setting up libglib2.0-0:armhf (2.50.2-2) ...
No schema files found: doing nothing.
Setting up libboost-regex1.62.0:armhf (1.62.0+dfsg-4) ...
Setting up python2.7 (2.7.13~rc1-1) ...
Setting up libnl-route-3-200:armhf (3.2.27-1) ...
Setting up autoconf (2.69-10) ...
Setting up file (1:5.29-1) ...
Setting up libhwloc5:armhf (1.11.5-1+rpi1) ...
Setting up libtext-multimarkdown-perl (1.000035-1) ...
Setting up libcroco3:armhf (0.6.11-2) ...
Setting up libpython-stdlib:armhf (2.7.11-2) ...
Setting up libhwloc-plugins (1.11.5-1+rpi1) ...
Setting up automake (1:1.15-5) ...
update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode
Setting up man-db (2.7.5-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up python (2.7.11-2) ...
Setting up libboost-chrono1.62.0:armhf (1.62.0+dfsg-4) ...
Setting up python-markdown (2.6.7-1) ...
Setting up libtool (2.4.6-2) ...
Setting up libibverbs1 (1.2.1-2) ...
Setting up libboost-timer1.62.0:armhf (1.62.0+dfsg-4) ...
Setting up libhwloc-dev:armhf (1.11.5-1+rpi1) ...
Setting up gettext (0.19.8.1-1) ...
Setting up libboost-graph1.62.0:armhf (1.62.0+dfsg-4) ...
Setting up intltool-debian (0.35.0+20060710.4) ...
Setting up googletest:armhf (1.8.0-3) ...
Setting up libboost-test1.62.0:armhf (1.62.0+dfsg-4) ...
Setting up libgtest-dev:armhf (1.8.0-3) ...
Setting up libopenmpi2 (2.0.1-7) ...
Setting up libibverbs-dev (1.2.1-2) ...
Setting up po-debconf (1.0.20) ...
Setting up libopenmpi-dev (2.0.1-7) ...
update-alternatives: using /usr/lib/openmpi/include to provide /usr/include/mpi (mpi) in auto mode
Setting up libboost-test1.62-dev:armhf (1.62.0+dfsg-4) ...
Setting up libboost-graph1.62-dev:armhf (1.62.0+dfsg-4) ...
Setting up libboost-graph-dev:armhf (1.62.0.1) ...
Setting up dh-autoreconf (12) ...
Setting up dh-strip-nondeterminism (0.028-1) ...
Setting up debhelper (10.2.2) ...
Setting up sbuild-build-depends-abyss-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.24-7+rpi1) ...
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.6.0-1-armmp armhf (armv7l)
Toolchain package versions: binutils_2.27.51.20161127-1 dpkg-dev_1.18.15 g++-6_6.2.1-5+rpi1 gcc-6_6.2.1-5+rpi1 libc6-dev_2.24-7+rpi1 libstdc++-6-dev_6.2.1-5+rpi1 libstdc++6_6.2.1-5+rpi1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch
Package versions: adduser_3.115 apt_1.4~beta1 autoconf_2.69-10 automake_1:1.15-5 autopoint_0.19.8.1-1 autotools-dev_20161112.1 base-files_9.7+rpi1 base-passwd_3.5.41 bash_4.4-2 binutils_2.27.51.20161127-1 bsdmainutils_9.0.12 bsdutils_1:2.29-1 build-essential_12.2 bzip2_1.0.6-8 coreutils_8.25-2 cpio_2.11+dfsg-6 cpp_4:6.1.1-1 cpp-6_6.2.1-5+rpi1 dash_0.5.8-2.3 debconf_1.5.59 debfoster_2.7-2.1 debhelper_10.2.2 debianutils_4.8.1 dh-autoreconf_12 dh-strip-nondeterminism_0.028-1 diffutils_1:3.5-1 dmsetup_2:1.02.136-1 dpkg_1.18.15 dpkg-dev_1.18.15 e2fslibs_1.43.3-1 e2fsprogs_1.43.3-1 fakeroot_1.21-2 file_1:5.29-1 findutils_4.6.0+git+20161106-1 fuse2fs_1.43.3-1 g++_4:6.1.1-1 g++-6_6.2.1-5+rpi1 gcc_4:6.1.1-1 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8-base_4.8.5-4 gcc-4.9-base_4.9.3-14 gcc-6_6.2.1-5+rpi1 gcc-6-base_6.2.1-5+rpi1 gettext_0.19.8.1-1 gettext-base_0.19.8.1-1 gnupg_2.1.16-2 gnupg-agent_2.1.16-2 gnupg-l10n_2.1.16-2 googletest_1.8.0-3 gpgv_2.1.16-2 grep_2.26-1 groff-base_1.22.3-8 gzip_1.6-5 hostname_3.18 init_1.46 init-system-helpers_1.46 initscripts_2.88dsf-59.8 insserv_1.14.0-5.4 intltool-debian_0.35.0+20060710.4 klibc-utils_2.0.4-9+rpi1 kmod_23-1 libacl1_2.2.52-3 libapparmor1_2.10.95-6 libapt-pkg5.0_1.4~beta1 libarchive-zip-perl_1.59-1 libasan3_6.2.1-5+rpi1 libassuan0_2.4.3-2 libatomic1_6.2.1-5+rpi1 libattr1_1:2.4.47-2 libaudit-common_1:2.6.7-1 libaudit1_1:2.6.7-1 libblkid1_2.29-1 libboost-chrono1.62.0_1.62.0+dfsg-4 libboost-graph-dev_1.62.0.1 libboost-graph1.62-dev_1.62.0+dfsg-4 libboost-graph1.62.0_1.62.0+dfsg-4 libboost-regex1.62.0_1.62.0+dfsg-4 libboost-serialization1.62-dev_1.62.0+dfsg-4 libboost-serialization1.62.0_1.62.0+dfsg-4 libboost-system1.62.0_1.62.0+dfsg-4 libboost-test1.62-dev_1.62.0+dfsg-4 libboost-test1.62.0_1.62.0+dfsg-4 libboost-timer1.62.0_1.62.0+dfsg-4 libboost1.62-dev_1.62.0+dfsg-4 libbsd0_0.8.3-1 libbz2-1.0_1.0.6-8 libc-bin_2.24-7+rpi1 libc-dev-bin_2.24-7+rpi1 libc6_2.24-7+rpi1 libc6-dev_2.24-7+rpi1 libcap-ng0_0.7.7-3 libcap2_1:2.25-1 libcap2-bin_1:2.25-1 libcc1-0_6.2.1-5+rpi1 libcomerr2_1.43.3-1 libcroco3_0.6.11-2 libcryptsetup4_2:1.7.3-2 libdb5.3_5.3.28-12 libdbus-1-3_1.10.14-1 libdebconfclient0_0.218 libdevmapper1.02.1_2:1.02.136-1 libdpkg-perl_1.18.15 libdrm2_2.4.74-1 libexpat1_2.2.0-1 libfakeroot_1.21-2 libfdisk1_2.29-1 libffi6_3.2.1-6 libfile-stripnondeterminism-perl_0.028-1 libfuse2_2.9.7-1 libgc1c2_1:7.4.2-8 libgcc-6-dev_6.2.1-5+rpi1 libgcc1_1:6.2.1-5+rpi1 libgcrypt20_1.7.3-2 libgdbm3_1.8.3-14 libgfortran3_6.2.1-5+rpi1 libglib2.0-0_2.50.2-2 libgmp10_2:6.1.1+dfsg-1 libgomp1_6.2.1-5+rpi1 libgpg-error0_1.25-1 libgtest-dev_1.8.0-3 libhtml-parser-perl_3.72-3 libhtml-tagset-perl_3.20-3 libhwloc-dev_1.11.5-1+rpi1 libhwloc-plugins_1.11.5-1+rpi1 libhwloc5_1.11.5-1+rpi1 libibverbs-dev_1.2.1-2 libibverbs1_1.2.1-2 libicu57_57.1-5 libidn11_1.33-1 libip4tc0_1.6.0-4 libisl15_0.17.1-1 libklibc_2.0.4-9+rpi1 libkmod2_23-1 libksba8_1.3.5-2 libltdl-dev_2.4.6-2 libltdl7_2.4.6-2 liblz4-1_0.0~r131-2 liblzma5_5.2.2-1.2 libmagic-mgc_1:5.29-1 libmagic1_1:5.29-1 libmount1_2.29-1 libmpc3_1.0.3-1 libmpfr4_3.1.5-1 libncurses5_6.0+20160917-1 libncursesw5_6.0+20160917-1 libnl-3-200_3.2.27-1 libnl-route-3-200_3.2.27-1 libnpth0_1.3-1 libopenmpi-dev_2.0.1-7 libopenmpi2_2.0.1-7 libpam-modules_1.1.8-3.3 libpam-modules-bin_1.1.8-3.3 libpam-runtime_1.1.8-3.3 libpam0g_1.1.8-3.3 libpciaccess0_0.13.4-1 libpcre3_2:8.39-2 libperl5.24_5.24.1~rc4-1 libpipeline1_1.4.1-2 libpng12-0_1.2.54-6 libprocps6_2:3.3.12-3 libpython-stdlib_2.7.11-2 libpython2.7-minimal_2.7.13~rc1-1 libpython2.7-stdlib_2.7.13~rc1-1 libreadline7_7.0-1 libseccomp2_2.3.1-2.1 libselinux1_2.6-3 libsemanage-common_2.6-1 libsemanage1_2.6-1 libsepol1_2.6-1 libsigsegv2_2.10-5 libsmartcols1_2.29-1 libsparsehash-dev_2.0.2-1 libsqlite3-0_3.15.2-1 libsqlite3-dev_3.15.2-1 libss2_1.43.3-1 libssl1.1_1.1.0c-2 libstdc++-6-dev_6.2.1-5+rpi1 libstdc++6_6.2.1-5+rpi1 libsystemd0_232-6 libtext-markdown-perl_1.000031-2 libtext-multimarkdown-perl_1.000035-1 libtimedate-perl_2.3000-2 libtinfo5_6.0+20160917-1 libtool_2.4.6-2 libubsan0_6.2.1-5+rpi1 libudev1_232-6 libunistring0_0.9.6+really0.9.3-0.1 liburi-perl_1.71-1 libusb-0.1-4_2:0.1.12-30 libustr-1.0-1_1.0.4-6 libuuid1_2.29-1 libxml2_2.9.4+dfsg1-2.1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch login_1:4.2-3.3 lsb-base_9.20161125+rpi1 m4_1.4.17-5 make_4.1-9 makedev_2.3.1-93 man-db_2.7.5-2 manpages_4.08-1 mawk_1.3.3-17 mime-support_3.60 mount_2.29-1 multiarch-support_2.24-7+rpi1 nano_2.7.1-1 ncurses-base_6.0+20160917-1 ncurses-bin_6.0+20160917-1 ocl-icd-libopencl1_2.2.10-2 openmpi-common_2.0.1-7 passwd_1:4.2-3.3 patch_2.7.5-1 perl_5.24.1~rc4-1 perl-base_5.24.1~rc4-1 perl-modules-5.24_5.24.1~rc4-1 pinentry-curses_0.9.7-9 po-debconf_1.0.20 procps_2:3.3.12-3 python_2.7.11-2 python-markdown_2.6.7-1 python-minimal_2.7.11-2 python2.7_2.7.13~rc1-1 python2.7-minimal_2.7.13~rc1-1 raspbian-archive-keyring_20120528.2 readline-common_7.0-1 sbuild-build-depends-abyss-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.2.2-8 sensible-utils_0.0.9 startpar_0.59-3.1 systemd_232-6 systemd-sysv_232-6 sysv-rc_2.88dsf-59.8 sysvinit-utils_2.88dsf-59.8 tar_1.29b-1.1 tzdata_2016j-2 udev_232-6 util-linux_2.29-1 xz-utils_5.2.2-1.2 zlib1g_1:1.2.8.dfsg-2+b1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Sun Dec 11 15:23:24 2016 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./abyss_2.0.2-2.dsc
dpkg-source: info: extracting abyss in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking abyss_2.0.2.orig.tar.gz
dpkg-source: info: unpacking abyss_2.0.2-2.debian.tar.xz
dpkg-source: info: applying abyss-pe.patch
dpkg-source: info: applying abyss-32-bit.patch
dpkg-source: info: applying fix_bash_script.patch
dpkg-source: info: applying big_endian.patch
Check disc space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=stretch-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=stretch-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=stretch-staging-armhf-sbuild-d5cc048b-f479-40b2-b850-3223082e9e9b
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package abyss
dpkg-buildpackage: info: source version 2.0.2-2
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build abyss-2.0.2
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean --with autoreconf
dh_testdir
dh_auto_clean
dh_autoreconf_clean
dh_clean
debian/rules build-arch
dh build-arch --with autoreconf
dh_testdir -a
dh_update_autotools_config -a
dh_autoreconf -a
configure.ac:11: installing './compile'
configure.ac:161: installing './config.guess'
configure.ac:161: installing './config.sub'
configure.ac:5: installing './install-sh'
configure.ac:5: installing './missing'
ABYSS/Makefile.am: installing './depcomp'
parallel-tests: installing './test-driver'
debian/rules override_dh_auto_configure
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_configure -- --with-mpi=/usr/lib/openmpi
./configure --build=arm-linux-gnueabihf --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-silent-rules --libdir=\${prefix}/lib/arm-linux-gnueabihf --libexecdir=\${prefix}/lib/arm-linux-gnueabihf --disable-maintainer-mode --disable-dependency-tracking --with-mpi=/usr/lib/openmpi
configure: WARNING: unrecognized options: --disable-maintainer-mode
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
checking for gawk... no
checking for mawk... mawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking for gawk... (cached) mawk
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking whether gcc understands -c and -o together... yes
checking for style of include used by make... GNU
checking dependency style of gcc... none
checking how to run the C preprocessor... gcc -E
checking for g++... g++
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking dependency style of g++... none
checking for ranlib... ranlib
checking for ghc... no
checking for ghc-pkg... no
./configure: line 5332: : command not found
checking for pandoc... no
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking dlfcn.h usability... yes
checking dlfcn.h presence... yes
checking for dlfcn.h... yes
checking fcntl.h usability... yes
checking fcntl.h presence... yes
checking for fcntl.h... yes
checking float.h usability... yes
checking float.h presence... yes
checking for float.h... yes
checking limits.h usability... yes
checking limits.h presence... yes
checking for limits.h... yes
checking stddef.h usability... yes
checking stddef.h presence... yes
checking for stddef.h... yes
checking for stdint.h... (cached) yes
checking for stdlib.h... (cached) yes
checking sys/param.h usability... yes
checking sys/param.h presence... yes
checking for sys/param.h... yes
checking for stdbool.h that conforms to C99... yes
checking for _Bool... yes
checking for ANSI C header files... (cached) yes
checking whether byte ordering is bigendian... no
checking for an ANSI C-conforming const... yes
checking for inline... inline
checking for ptrdiff_t... yes
checking for mode_t... yes
checking for pid_t... yes
checking for size_t... yes
checking for ssize_t... yes
checking for int64_t... yes
checking for uint8_t... yes
checking for uint16_t... yes
checking for uint32_t... yes
checking for uint64_t... yes
checking for std::hash<int>... yes
checking for std::tr1::hash<int>... yes
checking for std::tr1::tuple<int>... yes
checking for dup2... yes
checking for gethostname... yes
checking for getopt_long... yes
checking for getpagesize... yes
checking for memset... yes
checking for strdup... yes
checking for strerror... yes
checking for strtoul... yes
checking vfork.h usability... no
checking vfork.h presence... no
checking for vfork.h... no
checking for fork... yes
checking for vfork... yes
checking for working fork... yes
checking for working vfork... (cached) yes
checking for stdlib.h... (cached) yes
checking for GNU libc compatible malloc... yes
checking for working memcmp... yes
checking for stdlib.h... (cached) yes
checking for GNU libc compatible realloc... yes
checking for vprintf... yes
checking for _doprnt... no
checking whether HOST_NAME_MAX is declared... yes
checking build system type... arm-unknown-linux-gnueabihf
checking host system type... arm-unknown-linux-gnueabihf
checking if compiler needs -Werror to reject unknown flags... no
checking for the pthreads library -lpthreads... no
checking whether pthreads work without any flags... no
checking whether pthreads work with -Kthread... no
checking whether pthreads work with -kthread... no
checking for the pthreads library -llthread... no
checking whether pthreads work with -pthread... yes
checking for joinable pthread attribute... PTHREAD_CREATE_JOINABLE
checking if more special flags are required for pthreads... no
checking for PTHREAD_PRIO_INHERIT... yes
checking mpi.h usability... 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 functional usability... yes
checking functional presence... yes
checking for functional... yes
checking tr1/functional usability... yes
checking tr1/functional presence... yes
checking for tr1/functional... yes
checking boost/functional/hash.hpp usability... yes
checking boost/functional/hash.hpp presence... yes
checking for boost/functional/hash.hpp... yes
checking boost/property_map/property_map.hpp usability... yes
checking boost/property_map/property_map.hpp presence... yes
checking for boost/property_map/property_map.hpp... yes
checking google/sparse_hash_map usability... yes
checking google/sparse_hash_map presence... yes
checking for google/sparse_hash_map... yes
checking unordered_map usability... yes
checking unordered_map presence... yes
checking for unordered_map... yes
checking tr1/unordered_map usability... yes
checking tr1/unordered_map presence... yes
checking for tr1/unordered_map... yes
checking unordered_set usability... yes
checking unordered_set presence... yes
checking for unordered_set... yes
checking tr1/unordered_set usability... yes
checking tr1/unordered_set presence... yes
checking for tr1/unordered_set... yes
checking boost/unordered_set.hpp usability... yes
checking boost/unordered_set.hpp presence... yes
checking for boost/unordered_set.hpp... yes
checking sqlite3.h usability... yes
checking sqlite3.h presence... yes
checking for sqlite3.h... yes
checking for main in -lsqlite3... yes
checking for g++ option to support OpenMP... -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 Konnector/Makefile
config.status: creating DAssembler/Makefile
config.status: creating DistanceEst/Makefile
config.status: creating Layout/Makefile
config.status: creating Map/Makefile
config.status: creating Misc/Makefile
config.status: creating Overlap/Makefile
config.status: creating PopBubbles/Makefile
config.status: creating Scaffold/Makefile
config.status: creating SimpleGraph/Makefile
config.status: creating MergePaths/Makefile
config.status: creating KAligner/Makefile
config.status: creating PairedDBG/Makefile
config.status: creating ParseAligns/Makefile
config.status: creating PathOverlap/Makefile
config.status: creating Consensus/Makefile
config.status: creating FilterGraph/Makefile
config.status: creating GapFiller/Makefile
config.status: creating Sealer/Makefile
config.status: creating lib/gtest-1.7.0/Makefile
config.status: creating Unittest/Makefile
config.status: creating LogKmerCount/Makefile
config.status: creating Bloom/Makefile
config.status: creating BloomDBG/Makefile
config.status: creating DataBase/Makefile
config.status: creating lib/bloomfilter/Makefile
config.status: creating lib/rolling-hash/Makefile
config.status: creating config.h
config.status: executing depfiles commands
configure: WARNING: unrecognized options: --disable-maintainer-mode
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
debian/rules override_dh_auto_build
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_build
make -j4
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 Common
make[4]: Entering directory '/<<PKGBUILDDIR>>/Common'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-ContigID.o `test -f 'ContigID.cpp' || echo './'`ContigID.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-Fcontrol.o `test -f 'Fcontrol.cpp' || echo './'`Fcontrol.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-Histogram.o `test -f 'Histogram.cpp' || echo './'`Histogram.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-Kmer.o `test -f 'Kmer.cpp' || echo './'`Kmer.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-Log.o `test -f 'Log.cpp' || echo './'`Log.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-Options.o `test -f 'Options.cpp' || echo './'`Options.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-Sequence.o `test -f 'Sequence.cpp' || echo './'`Sequence.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-SignalHandler.o `test -f 'SignalHandler.cpp' || echo './'`SignalHandler.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-Timer.o `test -f 'Timer.cpp' || echo './'`Timer.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-Uncompress.o `test -f 'Uncompress.cpp' || echo './'`Uncompress.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libcommon_a-city.o `test -f 'city.cc' || echo './'`city.cc
rm -f libcommon.a
ar cru libcommon.a libcommon_a-ContigID.o libcommon_a-Fcontrol.o libcommon_a-Histogram.o libcommon_a-Kmer.o libcommon_a-Log.o libcommon_a-Options.o libcommon_a-Sequence.o libcommon_a-SignalHandler.o libcommon_a-Timer.o libcommon_a-Uncompress.o libcommon_a-city.o
ar: `u' modifier ignored since `D' is the default (see `U')
ranlib libcommon.a
make[4]: Leaving directory '/<<PKGBUILDDIR>>/Common'
Making all in Graph
make[4]: Entering directory '/<<PKGBUILDDIR>>/Graph'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_gc-gc.o `test -f 'gc.cc' || echo './'`gc.cc
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_todot-todot.o `test -f 'todot.cc' || echo './'`todot.cc
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-gc abyss_gc-gc.o ../Common/libcommon.a -ldl -lm
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L. -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-todot abyss_todot-todot.o ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/Graph'
Making all in DataLayer
make[4]: Entering directory '/<<PKGBUILDDIR>>/DataLayer'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libdatalayer_a-FastaReader.o `test -f 'FastaReader.cpp' || echo './'`FastaReader.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libdatalayer_a-FastaWriter.o `test -f 'FastaWriter.cpp' || echo './'`FastaWriter.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_fac-fac.o `test -f 'fac.cc' || echo './'`fac.cc
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_tofastq-abyss-tofastq.o `test -f 'abyss-tofastq.cc' || echo './'`abyss-tofastq.cc
rm -f libdatalayer.a
ar cru libdatalayer.a libdatalayer_a-FastaReader.o libdatalayer_a-FastaWriter.o
ar: `u' modifier ignored since `D' is the default (see `U')
ranlib libdatalayer.a
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-tofastq abyss_tofastq-abyss-tofastq.o libdatalayer.a ../Common/libcommon.a -ldl -lm
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-fac abyss_fac-fac.o libdatalayer.a ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/DataLayer'
Making all in DataBase
make[4]: Entering directory '/<<PKGBUILDDIR>>/DataBase'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libdb_a-DB.o `test -f 'DB.cc' || echo './'`DB.cc
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_db_csv-DB.o `test -f 'DB.cc' || echo './'`DB.cc
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_db_csv-db-csv.o `test -f 'db-csv.cc' || echo './'`db-csv.cc
rm -f libdb.a
ar cru libdb.a libdb_a-DB.o ../Common/libcommon.a
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-db-csv abyss_db_csv-DB.o abyss_db_csv-db-csv.o -lsqlite3 -ldl -lm
ar: `u' modifier ignored since `D' is the default (see `U')
ranlib libdb.a
make[4]: Leaving directory '/<<PKGBUILDDIR>>/DataBase'
Making all in FMIndex
make[4]: Entering directory '/<<PKGBUILDDIR>>/FMIndex'
g++ -DHAVE_CONFIG_H -I. -I.. -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libfmindex_a-bit_array.o `test -f 'bit_array.cc' || echo './'`bit_array.cc
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_count-count.o `test -f 'count.cc' || echo './'`count.cc
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_dawg-abyss-dawg.o `test -f 'abyss-dawg.cc' || echo './'`abyss-dawg.cc
rm -f libfmindex.a
ar cru libfmindex.a libfmindex_a-bit_array.o
ar: `u' modifier ignored since `D' is the default (see `U')
ranlib libfmindex.a
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-count abyss_count-count.o libfmindex.a ../Common/libcommon.a -ldl -lm
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-dawg abyss_dawg-abyss-dawg.o libfmindex.a ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/FMIndex'
Making all in Assembly
make[4]: Entering directory '/<<PKGBUILDDIR>>/Assembly'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libassembly_a-AssemblyAlgorithms.o `test -f 'AssemblyAlgorithms.cc' || echo './'`AssemblyAlgorithms.cc
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libassembly_a-Options.o `test -f 'Options.cc' || echo './'`Options.cc
rm -f libassembly.a
ar cru libassembly.a libassembly_a-AssemblyAlgorithms.o libassembly_a-Options.o ../Common/libcommon.a
ar: `u' modifier ignored since `D' is the default (see `U')
ranlib libassembly.a
make[4]: Leaving directory '/<<PKGBUILDDIR>>/Assembly'
Making all in dialign
make[4]: Entering directory '/<<PKGBUILDDIR>>/dialign'
gcc -DHAVE_CONFIG_H -I. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o alig.o alig.c
gcc -DHAVE_CONFIG_H -I. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o assemble.o assemble.c
gcc -DHAVE_CONFIG_H -I. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o diag.o diag.c
gcc -DHAVE_CONFIG_H -I. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o io.o io.c
assemble.c:40:20: warning: inline function 'align_diag' declared but never defined
extern inline char align_diag(struct alignment *algn, struct scr_matrix *smatrix, struct diag* dg);
^~~~~~~~~~
assemble.c:37:32: warning: inline function 'find_eqc' declared but never defined
extern inline struct algn_pos *find_eqc(struct algn_pos **ap, int seqnum, int pos);
^~~~~~~~
assemble.c:25:39: warning: inline function 'find_diags_guided' declared but never defined
extern inline struct simple_diag_col* find_diags_guided(struct scr_matrix *smatrix,
^~~~~~~~~~~~~~~~~
assemble.c:15:20: warning: inline function 'calc_ov_weight' declared but never defined
extern inline void calc_ov_weight(struct diag* dg, struct diag_col *dcol, struct scr_matrix* smatrix,
^~~~~~~~~~~~~~
assemble.c:13:20: warning: inline function 'calc_weight' declared but never defined
extern inline void calc_weight(struct diag* dg, struct scr_matrix* smatrix,
^~~~~~~~~~~
alig.c:15:20: warning: inline function 'calc_ov_weight' declared but never defined
extern inline void calc_ov_weight(struct diag* dg, struct diag_col *dcol, struct scr_matrix* smatrix,
^~~~~~~~~~~~~~
alig.c:13:20: warning: inline function 'calc_weight' declared but never defined
extern inline void calc_weight(struct diag* dg, struct scr_matrix* smatrix,
^~~~~~~~~~~
diag.c:1456:3: warning: 'real_calc_weight' is static but used in inline function 'find_diags_dyn' which is not static
real_calc_weight(dg, smatrix, pdist,1,tmp_dist,algn);
^~~~~~~~~~~~~~~~
io.c: In function 'read_scr_matrix':
io.c:270:3: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
fscanf( fp, "%i", &is);
^~~~~~~~~~~~~~~~~~~~~~
io.c:282:5: 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:371:7: 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/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o orf.o orf.c
gcc -DHAVE_CONFIG_H -I. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o parameters.o parameters.c
gcc -DHAVE_CONFIG_H -I. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o prob.o prob.c
gcc -DHAVE_CONFIG_H -I. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o translate.o translate.c
gcc -DHAVE_CONFIG_H -I. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o museq.o museq.c
museq.c: In function 'main':
museq.c:168:2: warning: implicit declaration of function 'free_diag' [-Wimplicit-function-declaration]
free_diag(adcol.diags[i]);
^~~~~~~~~
museq.c:278:27: warning: implicit declaration of function 'free_alignment' [-Wimplicit-function-declaration]
if(! para->FAST_MODE) free_alignment(algn);
^~~~~~~~~~~~~~
rm -f libdialign.a
ar cru libdialign.a alig.o assemble.o diag.o io.o orf.o parameters.o prob.o translate.o
ar: `u' modifier ignored since `D' is the default (see `U')
ranlib libdialign.a
gcc -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -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/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libalign_a-alignGlobal.o `test -f 'alignGlobal.cc' || echo './'`alignGlobal.cc
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libalign_a-dialign.o `test -f 'dialign.cpp' || echo './'`dialign.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libalign_a-dna_diag_prob.o `test -f 'dna_diag_prob.cc' || echo './'`dna_diag_prob.cc
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o libalign_a-smith_waterman.o `test -f 'smith_waterman.cpp' || echo './'`smith_waterman.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_align-align.o `test -f 'align.cc' || echo './'`align.cc
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_mergepairs-mergepairs.o `test -f 'mergepairs.cc' || echo './'`mergepairs.cc
rm -f libalign.a
ar cru libalign.a libalign_a-alignGlobal.o libalign_a-dialign.o libalign_a-dna_diag_prob.o libalign_a-smith_waterman.o
ar: `u' modifier ignored since `D' is the default (see `U')
ranlib libalign.a
g++ -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-align abyss_align-align.o ./libalign.a ../dialign/libdialign.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
g++ -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-mergepairs abyss_mergepairs-mergepairs.o ./libalign.a ../dialign/libdialign.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/Align'
Making all in ABYSS
make[4]: Entering directory '/<<PKGBUILDDIR>>/ABYSS'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o ABYSS-abyss.o `test -f 'abyss.cc' || echo './'`abyss.cc
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o ABYSS ABYSS-abyss.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../Assembly/libassembly.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/ABYSS'
Making all in Parallel
make[4]: Entering directory '/<<PKGBUILDDIR>>/Parallel'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o ABYSS_P-parallelAbyss.o `test -f 'parallelAbyss.cpp' || echo './'`parallelAbyss.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o ABYSS_P-CommLayer.o `test -f 'CommLayer.cpp' || echo './'`CommLayer.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o ABYSS_P-NetworkSequenceCollection.o `test -f 'NetworkSequenceCollection.cpp' || echo './'`NetworkSequenceCollection.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o ABYSS_P-MessageBuffer.o `test -f 'MessageBuffer.cpp' || echo './'`MessageBuffer.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o ABYSS_P-Messages.o `test -f 'Messages.cpp' || echo './'`Messages.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -DPAIRED_DBG -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_paired_dbg_mpi-parallelAbyss.o `test -f 'parallelAbyss.cpp' || echo './'`parallelAbyss.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -DPAIRED_DBG -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_paired_dbg_mpi-CommLayer.o `test -f 'CommLayer.cpp' || echo './'`CommLayer.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -DPAIRED_DBG -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_paired_dbg_mpi-NetworkSequenceCollection.o `test -f 'NetworkSequenceCollection.cpp' || echo './'`NetworkSequenceCollection.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -DPAIRED_DBG -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_paired_dbg_mpi-MessageBuffer.o `test -f 'MessageBuffer.cpp' || echo './'`MessageBuffer.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -DPAIRED_DBG -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_paired_dbg_mpi-Messages.o `test -f 'Messages.cpp' || echo './'`Messages.cpp
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -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 ../DataBase/libdb.a -lsqlite3 -ldl -lm -lmpi -ldl -lm
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-paired-dbg-mpi abyss_paired_dbg_mpi-parallelAbyss.o abyss_paired_dbg_mpi-CommLayer.o abyss_paired_dbg_mpi-NetworkSequenceCollection.o abyss_paired_dbg_mpi-MessageBuffer.o abyss_paired_dbg_mpi-Messages.o ../Assembly/libassembly.a ../Common/libcommon.a ../DataLayer/libdatalayer.a ../DataBase/libdb.a -lsqlite3 -ldl -lm -lmpi -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/Parallel'
Making all in Bloom
make[4]: Entering directory '/<<PKGBUILDDIR>>/Bloom'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_bloom-bloom.o `test -f 'bloom.cc' || echo './'`bloom.cc
g++ -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-bloom abyss_bloom-bloom.o ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/Bloom'
Making all in BloomDBG
make[4]: Entering directory '/<<PKGBUILDDIR>>/BloomDBG'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_bloom_dbg-bloom-dbg.o `test -f 'bloom-dbg.cc' || echo './'`bloom-dbg.cc
g++ -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-bloom-dbg abyss_bloom_dbg-bloom-dbg.o ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/BloomDBG'
Making all in Konnector
make[4]: Entering directory '/<<PKGBUILDDIR>>/Konnector'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o konnector-konnector.o `test -f 'konnector.cc' || echo './'`konnector.cc
g++ -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o konnector konnector-konnector.o ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/Konnector'
Making all in Consensus
make[4]: Entering directory '/<<PKGBUILDDIR>>/Consensus'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Consensus-Consensus.o `test -f 'Consensus.cpp' || echo './'`Consensus.cpp
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -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/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o DAssembler-DAssembler.o `test -f 'DAssembler.cpp' || echo './'`DAssembler.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o DAssembler-RotatedRead.o `test -f 'RotatedRead.cpp' || echo './'`RotatedRead.cpp
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o DAssembler DAssembler-DAssembler.o DAssembler-RotatedRead.o ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/DAssembler'
Making all in DistanceEst
make[4]: Entering directory '/<<PKGBUILDDIR>>/DistanceEst'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o DistanceEst-DistanceEst.o `test -f 'DistanceEst.cpp' || echo './'`DistanceEst.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o DistanceEst-MLE.o `test -f 'MLE.cpp' || echo './'`MLE.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -D SAM_SEQ_QUAL=1 -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o DistanceEst_ssq-DistanceEst.o `test -f 'DistanceEst.cpp' || echo './'`DistanceEst.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -D SAM_SEQ_QUAL=1 -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o DistanceEst_ssq-MLE.o `test -f 'MLE.cpp' || echo './'`MLE.cpp
g++ -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o DistanceEst DistanceEst-DistanceEst.o DistanceEst-MLE.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../Common/libcommon.a -ldl -lm
g++ -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o DistanceEst-ssq DistanceEst_ssq-DistanceEst.o DistanceEst_ssq-MLE.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/DistanceEst'
Making all in KAligner
make[4]: Entering directory '/<<PKGBUILDDIR>>/KAligner'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o KAligner-KAligner.o `test -f 'KAligner.cpp' || echo './'`KAligner.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o KAligner-Aligner.o `test -f 'Aligner.cpp' || echo './'`Aligner.cpp
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o KAligner KAligner-KAligner.o KAligner-Aligner.o ../DataLayer/libdatalayer.a ../Common/libcommon.a -lpthread -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/KAligner'
Making all in Layout
make[4]: Entering directory '/<<PKGBUILDDIR>>/Layout'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_layout-layout.o `test -f 'layout.cc' || echo './'`layout.cc
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-layout abyss_layout-layout.o ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/Layout'
Making all in LogKmerCount
make[4]: Entering directory '/<<PKGBUILDDIR>>/LogKmerCount'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o logcounter-logcounter.o `test -f 'logcounter.cc' || echo './'`logcounter.cc
g++ -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o logcounter logcounter-logcounter.o ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/LogKmerCount'
Making all in Map
make[4]: Entering directory '/<<PKGBUILDDIR>>/Map'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I../FMIndex -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_index-index.o `test -f 'index.cc' || echo './'`index.cc
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I../FMIndex -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_map-map.o `test -f 'map.cc' || echo './'`map.cc
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I../FMIndex -D SAM_SEQ_QUAL=1 -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_map_ssq-map.o `test -f 'map.cc' || echo './'`map.cc
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I../FMIndex -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_overlap-overlap.o `test -f 'overlap.cc' || echo './'`overlap.cc
index.cc: In function 'void buildFMIndex(FMIndex&, const string&)':
index.cc:149:64: warning: large integer implicitly truncated to unsigned type [-Woverflow]
size_t MAX_SIZE = numeric_limits<FMIndex::sais_size_type>::max();
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~
overlap.cc: In function 'void buildFMIndex(FMIndex&, const char*)':
overlap.cc:296:64: warning: large integer implicitly truncated to unsigned type [-Woverflow]
size_t MAX_SIZE = numeric_limits<FMIndex::sais_size_type>::max();
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~
map.cc: In function 'void buildFMIndex(FMIndex&, const char*)':
map.cc:492:64: warning: large integer implicitly truncated to unsigned type [-Woverflow]
size_t MAX_SIZE = numeric_limits<FMIndex::sais_size_type>::max();
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~
map.cc: In function 'void buildFMIndex(FMIndex&, const char*)':
map.cc:492:64: warning: large integer implicitly truncated to unsigned type [-Woverflow]
size_t MAX_SIZE = numeric_limits<FMIndex::sais_size_type>::max();
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-index abyss_index-index.o ../FMIndex/libfmindex.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
g++ -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-map abyss_map-map.o ../FMIndex/libfmindex.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../DataBase/libdb.a -lsqlite3 -ldl -lm -ldl -lm
g++ -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-map-ssq abyss_map_ssq-map.o ../FMIndex/libfmindex.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../DataBase/libdb.a -lsqlite3 -ldl -lm -ldl -lm
g++ -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-overlap abyss_overlap-overlap.o ../FMIndex/libfmindex.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/Map'
Making all in MergePaths
make[4]: Entering directory '/<<PKGBUILDDIR>>/MergePaths'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o MergePaths-MergePaths.o `test -f 'MergePaths.cpp' || echo './'`MergePaths.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Align -I../Common -I../DataLayer -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o MergeContigs-MergeContigs.o `test -f 'MergeContigs.cpp' || echo './'`MergeContigs.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Align -I../Common -I../DataLayer -I../SimpleGraph -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o PathConsensus-PathConsensus.o `test -f 'PathConsensus.cpp' || echo './'`PathConsensus.cpp
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o MergeContigs MergeContigs-MergeContigs.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a -ldl -lm
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o PathConsensus PathConsensus-PathConsensus.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a ../dialign/libdialign.a -ldl -lm
g++ -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o MergePaths MergePaths-MergePaths.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<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/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Overlap-Overlap.o `test -f 'Overlap.cpp' || echo './'`Overlap.cpp
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o Overlap Overlap-Overlap.o ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/Overlap'
Making all in PairedDBG
make[4]: Entering directory '/<<PKGBUILDDIR>>/PairedDBG'
g++ -DHAVE_CONFIG_H -I. -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o KmerPair.o KmerPair.cc
g++ -DHAVE_CONFIG_H -I. -I.. -DPAIRED_DBG -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_paired_dbg-abyss-paired-dbg.o `test -f 'abyss-paired-dbg.cc' || echo './'`abyss-paired-dbg.cc
g++ -DHAVE_CONFIG_H -I. -I.. -DPAIRED_DBG -I.. -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_paired_dbg-KmerPair.o `test -f 'KmerPair.cc' || echo './'`KmerPair.cc
rm -f libpaireddbg.a
ar cru libpaireddbg.a KmerPair.o
ar: `u' modifier ignored since `D' is the default (see `U')
ranlib libpaireddbg.a
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-paired-dbg abyss_paired_dbg-abyss-paired-dbg.o abyss_paired_dbg-KmerPair.o ../Assembly/libassembly.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../DataBase/libdb.a -lsqlite3 -ldl -lm -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/PairedDBG'
Making all in ParseAligns
make[4]: Entering directory '/<<PKGBUILDDIR>>/ParseAligns'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_fixmate-abyss-fixmate.o `test -f 'abyss-fixmate.cc' || echo './'`abyss-fixmate.cc
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -D SAM_SEQ_QUAL=1 -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_fixmate_ssq-abyss-fixmate.o `test -f 'abyss-fixmate.cc' || echo './'`abyss-fixmate.cc
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o ParseAligns-ParseAligns.o `test -f 'ParseAligns.cpp' || echo './'`ParseAligns.cpp
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o ParseAligns ParseAligns-ParseAligns.o ../Common/libcommon.a -ldl -lm
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-fixmate abyss_fixmate-abyss-fixmate.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../Common/libcommon.a -ldl -lm
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-fixmate-ssq abyss_fixmate_ssq-abyss-fixmate.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/ParseAligns'
Making all in PathOverlap
make[4]: Entering directory '/<<PKGBUILDDIR>>/PathOverlap'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o PathOverlap-PathOverlap.o `test -f 'PathOverlap.cpp' || echo './'`PathOverlap.cpp
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o PathOverlap PathOverlap-PathOverlap.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<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/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o PopBubbles-PopBubbles.o `test -f 'PopBubbles.cpp' || echo './'`PopBubbles.cpp
g++ -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o PopBubbles PopBubbles-PopBubbles.o ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a ../dialign/libdialign.a -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/PopBubbles'
Making all in Scaffold
make[4]: Entering directory '/<<PKGBUILDDIR>>/Scaffold'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_scaffold-scaffold.o `test -f 'scaffold.cc' || echo './'`scaffold.cc
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_junction-junction.o `test -f 'junction.cc' || echo './'`junction.cc
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_longseqdist-longseqdist.o `test -f 'longseqdist.cpp' || echo './'`longseqdist.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_drawgraph-drawgraph.o `test -f 'drawgraph.cc' || echo './'`drawgraph.cc
g++ -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-junction abyss_junction-junction.o ../Common/libcommon.a -ldl -lm
g++ -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-longseqdist abyss_longseqdist-longseqdist.o ../Common/libcommon.a -ldl -lm
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-drawgraph abyss_drawgraph-drawgraph.o ../Common/libcommon.a -ldl -lm
g++ -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-scaffold abyss_scaffold-scaffold.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/Scaffold'
Making all in SimpleGraph
make[4]: Entering directory '/<<PKGBUILDDIR>>/SimpleGraph'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -Wno-strict-aliasing -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o SimpleGraph-SimpleGraph.o `test -f 'SimpleGraph.cpp' || echo './'`SimpleGraph.cpp
g++ -Wall -Wextra -Wno-strict-aliasing -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o SimpleGraph SimpleGraph-SimpleGraph.o ../DataBase/libdb.a -lsqlite3 -ldl -lm ../Common/libcommon.a -lpthread -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/SimpleGraph'
Making all in kmerprint
make[4]: Entering directory '/<<PKGBUILDDIR>>/kmerprint'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Assembly -I../Common -I../DataLayer -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o kmerprint-kmerprint.o `test -f 'kmerprint.cc' || echo './'`kmerprint.cc
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o kmerprint kmerprint-kmerprint.o ../Assembly/libassembly.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/kmerprint'
Making all in FilterGraph
make[4]: Entering directory '/<<PKGBUILDDIR>>/FilterGraph'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_filtergraph-FilterGraph.o `test -f 'FilterGraph.cc' || echo './'`FilterGraph.cc
g++ -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-filtergraph abyss_filtergraph-FilterGraph.o ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/FilterGraph'
Making all in GapFiller
make[4]: Entering directory '/<<PKGBUILDDIR>>/GapFiller'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I../Align -D SAM_SEQ_QUAL=1 -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_gapfill-gapfill.o `test -f 'gapfill.cpp' || echo './'`gapfill.cpp
g++ -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-gapfill abyss_gapfill-gapfill.o ../Align/libalign.a ../dialign/libdialign.a ../DataLayer/libdatalayer.a ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/GapFiller'
Making all in Sealer
make[4]: Entering directory '/<<PKGBUILDDIR>>/Sealer'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o abyss_sealer-sealer.o `test -f 'sealer.cc' || echo './'`sealer.cc
g++ -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o abyss-sealer abyss_sealer-sealer.o ../DataLayer/libdatalayer.a ../Align/libalign.a ../Common/libcommon.a -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/Sealer'
Making all in AdjList
make[4]: Entering directory '/<<PKGBUILDDIR>>/AdjList'
g++ -DHAVE_CONFIG_H -I. -I.. -I.. -I../Common -I../DataLayer -DPAIRED_DBG -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o AdjList-AdjList.o `test -f 'AdjList.cpp' || echo './'`AdjList.cpp
g++ -Wall -Wextra -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o AdjList AdjList-AdjList.o ../DataLayer/libdatalayer.a ../Common/libcommon.a ../PairedDBG/libpaireddbg.a ../DataBase/libdb.a -lsqlite3 -ldl -lm -ldl -lm
make[4]: Leaving directory '/<<PKGBUILDDIR>>/AdjList'
Making all in lib/bloomfilter
make[4]: Entering directory '/<<PKGBUILDDIR>>/lib/bloomfilter'
make[4]: Nothing to be done for 'all'.
make[4]: Leaving directory '/<<PKGBUILDDIR>>/lib/bloomfilter'
Making all in lib/rolling-hash
make[4]: Entering directory '/<<PKGBUILDDIR>>/lib/rolling-hash'
make[4]: Nothing to be done for 'all'.
make[4]: Leaving directory '/<<PKGBUILDDIR>>/lib/rolling-hash'
Making all in lib/gtest-1.7.0
make[4]: Entering directory '/<<PKGBUILDDIR>>/lib/gtest-1.7.0'
make[4]: Nothing to be done for 'all'.
make[4]: Leaving directory '/<<PKGBUILDDIR>>/lib/gtest-1.7.0'
Making all in Unittest
make[4]: Entering directory '/<<PKGBUILDDIR>>/Unittest'
make[4]: Nothing to be done for 'all'.
make[4]: Leaving directory '/<<PKGBUILDDIR>>/Unittest'
make[4]: Entering directory '/<<PKGBUILDDIR>>'
make[4]: Leaving directory '/<<PKGBUILDDIR>>'
make[3]: Leaving directory '/<<PKGBUILDDIR>>'
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
markdown_py -f README.html README.md
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_test -a
make -j4 check VERBOSE=1
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 Common
make[2]: Entering directory '/<<PKGBUILDDIR>>/Common'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/<<PKGBUILDDIR>>/Common'
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 DataLayer
make[2]: Entering directory '/<<PKGBUILDDIR>>/DataLayer'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/<<PKGBUILDDIR>>/DataLayer'
Making check in DataBase
make[2]: Entering directory '/<<PKGBUILDDIR>>/DataBase'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/<<PKGBUILDDIR>>/DataBase'
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 Assembly
make[2]: Entering directory '/<<PKGBUILDDIR>>/Assembly'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/<<PKGBUILDDIR>>/Assembly'
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 Bloom
make[2]: Entering directory '/<<PKGBUILDDIR>>/Bloom'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/<<PKGBUILDDIR>>/Bloom'
Making check in BloomDBG
make[2]: Entering directory '/<<PKGBUILDDIR>>/BloomDBG'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/<<PKGBUILDDIR>>/BloomDBG'
Making check in Konnector
make[2]: Entering directory '/<<PKGBUILDDIR>>/Konnector'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/<<PKGBUILDDIR>>/Konnector'
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 LogKmerCount
make[2]: Entering directory '/<<PKGBUILDDIR>>/LogKmerCount'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/<<PKGBUILDDIR>>/LogKmerCount'
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 PairedDBG
make[2]: Entering directory '/<<PKGBUILDDIR>>/PairedDBG'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/<<PKGBUILDDIR>>/PairedDBG'
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'
Making check in GapFiller
make[2]: Entering directory '/<<PKGBUILDDIR>>/GapFiller'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/<<PKGBUILDDIR>>/GapFiller'
Making check in Sealer
make[2]: Entering directory '/<<PKGBUILDDIR>>/Sealer'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/<<PKGBUILDDIR>>/Sealer'
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 lib/bloomfilter
make[2]: Entering directory '/<<PKGBUILDDIR>>/lib/bloomfilter'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/<<PKGBUILDDIR>>/lib/bloomfilter'
Making check in lib/rolling-hash
make[2]: Entering directory '/<<PKGBUILDDIR>>/lib/rolling-hash'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/<<PKGBUILDDIR>>/lib/rolling-hash'
Making check in lib/gtest-1.7.0
make[2]: Entering directory '/<<PKGBUILDDIR>>/lib/gtest-1.7.0'
make libgtest.a libgtest_main.a
make[3]: Entering directory '/<<PKGBUILDDIR>>/lib/gtest-1.7.0'
g++ -DHAVE_CONFIG_H -I. -I../.. -I../.. -isystem ../../lib/gtest-1.7.0/include -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -Wno-missing-field-initializers -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o src/libgtest_a-gtest-all.o `test -f 'src/gtest-all.cc' || echo './'`src/gtest-all.cc
g++ -DHAVE_CONFIG_H -I. -I../.. -I../.. -isystem ../../lib/gtest-1.7.0/include -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -Wno-missing-field-initializers -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o src/libgtest_main_a-gtest_main.o `test -f 'src/gtest_main.cc' || echo './'`src/gtest_main.cc
g++ -DHAVE_CONFIG_H -I. -I../.. -I../.. -isystem ../../lib/gtest-1.7.0/include -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -Wno-missing-field-initializers -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o src/libgtest_main_a-gtest-all.o `test -f 'src/gtest-all.cc' || echo './'`src/gtest-all.cc
rm -f libgtest.a
ar cru libgtest.a src/libgtest_a-gtest-all.o
rm -f libgtest_main.a
ar: `u' modifier ignored since `D' is the default (see `U')
ar cru libgtest_main.a src/libgtest_main_a-gtest_main.o src/libgtest_main_a-gtest-all.o
ar: `u' modifier ignored since `D' is the default (see `U')
ranlib libgtest.a
ranlib libgtest_main.a
make[3]: Leaving directory '/<<PKGBUILDDIR>>/lib/gtest-1.7.0'
make[2]: Leaving directory '/<<PKGBUILDDIR>>/lib/gtest-1.7.0'
Making check in Unittest
make[2]: Entering directory '/<<PKGBUILDDIR>>/Unittest'
make common_stringutil common_histogram common_bitutil common_kmer common_sequence common_KmerIterator common_sam BloomFilter Konnector_DBGBloom Konnector_DBGBloomAlgorithms graph_ConstrainedBFSVisitor graph_BidirectionalBFS graph_AllPathsSearch graph_HashGraph graph_ConstrainedBidiBFSVisitor graph_ExtendPath graph_DotIO graph_UndirectedGraph Konnector_konnector DBG_LoadAlgorithm PairedDBG_LoadAlgorithm PairedDBG_KmerPair PairedDBG_Dinuc PairedDBG_BranchRecord BloomDBG_BloomDBG BloomDBG_RollingHash BloomDBG_RollingHashIterator BloomDBG_HashAgnosticCascadingBloom BloomDBG_RollingBloomDBG BloomDBG_MaskedKmer BloomDBG_SpacedSeed
make[3]: Entering directory '/<<PKGBUILDDIR>>/Unittest'
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Common/StringUtilTest.o Common/StringUtilTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Common/HistogramTest.o Common/HistogramTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Common/BitUtilTest.o Common/BitUtilTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Common/KmerTest.o Common/KmerTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Common/Sequence.o Common/Sequence.cc
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Common/KmerIteratorTest.o Common/KmerIteratorTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Common/SAM.o Common/SAM.cc
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Konnector/BloomFilter-BloomFilter.o `test -f 'Konnector/BloomFilter.cc' || echo './'`Konnector/BloomFilter.cc
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Konnector/Konnector_DBGBloom-DBGBloomTest.o `test -f 'Konnector/DBGBloomTest.cpp' || echo './'`Konnector/DBGBloomTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Konnector/Konnector_DBGBloomAlgorithms-DBGBloomAlgorithmsTest.o `test -f 'Konnector/DBGBloomAlgorithmsTest.cpp' || echo './'`Konnector/DBGBloomAlgorithmsTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Graph/graph_ConstrainedBFSVisitor-ConstrainedBFSVisitorTest.o `test -f 'Graph/ConstrainedBFSVisitorTest.cpp' || echo './'`Graph/ConstrainedBFSVisitorTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Graph/graph_BidirectionalBFS-BidirectionalBFSTest.o `test -f 'Graph/BidirectionalBFSTest.cpp' || echo './'`Graph/BidirectionalBFSTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Graph/graph_AllPathsSearch-AllPathsSearchTest.o `test -f 'Graph/AllPathsSearchTest.cpp' || echo './'`Graph/AllPathsSearchTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Graph/graph_HashGraph-HashGraphTest.o `test -f 'Graph/HashGraphTest.cpp' || echo './'`Graph/HashGraphTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Graph/graph_ConstrainedBidiBFSVisitor-ConstrainedBidiBFSVisitorTest.o `test -f 'Graph/ConstrainedBidiBFSVisitorTest.cpp' || echo './'`Graph/ConstrainedBidiBFSVisitorTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Graph/graph_ExtendPath-ExtendPathTest.o `test -f 'Graph/ExtendPathTest.cpp' || echo './'`Graph/ExtendPathTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Graph/graph_DotIO-DotIOTest.o `test -f 'Graph/DotIOTest.cpp' || echo './'`Graph/DotIOTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Graph/UndirectedGraphTest.o Graph/UndirectedGraphTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o Konnector/Konnector_konnector-konnectorTest.o `test -f 'Konnector/konnectorTest.cpp' || echo './'`Konnector/konnectorTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../DataLayer -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o DBG/DBG_LoadAlgorithm-LoadAlgorithmTest.o `test -f 'DBG/LoadAlgorithmTest.cpp' || echo './'`DBG/LoadAlgorithmTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../DataLayer -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o PairedDBG/PairedDBG_LoadAlgorithm-LoadAlgorithmTest.o `test -f 'PairedDBG/LoadAlgorithmTest.cpp' || echo './'`PairedDBG/LoadAlgorithmTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../DataLayer -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o PairedDBG/PairedDBG_KmerPair-KmerPairTest.o `test -f 'PairedDBG/KmerPairTest.cc' || echo './'`PairedDBG/KmerPairTest.cc
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../DataLayer -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o PairedDBG/PairedDBG_Dinuc-DinucTest.o `test -f 'PairedDBG/DinucTest.cc' || echo './'`PairedDBG/DinucTest.cc
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../DataLayer -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o PairedDBG/PairedDBG_BranchRecord-BranchRecordTest.o `test -f 'PairedDBG/BranchRecordTest.cpp' || echo './'`PairedDBG/BranchRecordTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I../Common -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o BloomDBG/BloomDBG_BloomDBG-BloomDBGTest.o `test -f 'BloomDBG/BloomDBGTest.cpp' || echo './'`BloomDBG/BloomDBGTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o BloomDBG/RollingHashTest.o BloomDBG/RollingHashTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o BloomDBG/RollingHashIteratorTest.o BloomDBG/RollingHashIteratorTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o BloomDBG/BloomDBG_HashAgnosticCascadingBloom-HashAgnosticCascadingBloomTest.o `test -f 'BloomDBG/HashAgnosticCascadingBloomTest.cpp' || echo './'`BloomDBG/HashAgnosticCascadingBloomTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o BloomDBG/BloomDBG_RollingBloomDBG-RollingBloomDBGTest.o `test -f 'BloomDBG/RollingBloomDBGTest.cpp' || echo './'`BloomDBG/RollingBloomDBGTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o BloomDBG/MaskedKmerTest.o BloomDBG/MaskedKmerTest.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DGTEST_USE_OWN_TR1_TUPLE=0 -I.. -I../lib/gtest-1.7.0/include -I/<<PKGBUILDDIR>> -isystem/usr/lib/openmpi/include -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/<<PKGBUILDDIR>>/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -c -o BloomDBG/SpacedSeedTest.o BloomDBG/SpacedSeedTest.cpp
g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o common_stringutil Common/StringUtilTest.o ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o common_histogram Common/HistogramTest.o ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o common_bitutil Common/BitUtilTest.o ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o common_kmer Common/KmerTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o common_sequence Common/Sequence.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o common_KmerIterator Common/KmerIteratorTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o common_sam Common/SAM.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o BloomFilter Konnector/BloomFilter-BloomFilter.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o Konnector_DBGBloom Konnector/Konnector_DBGBloom-DBGBloomTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o Konnector_DBGBloomAlgorithms Konnector/Konnector_DBGBloomAlgorithms-DBGBloomAlgorithmsTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o graph_ConstrainedBFSVisitor Graph/graph_ConstrainedBFSVisitor-ConstrainedBFSVisitorTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o graph_BidirectionalBFS Graph/graph_BidirectionalBFS-BidirectionalBFSTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o graph_AllPathsSearch Graph/graph_AllPathsSearch-AllPathsSearchTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o graph_HashGraph Graph/graph_HashGraph-HashGraphTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o graph_ConstrainedBidiBFSVisitor Graph/graph_ConstrainedBidiBFSVisitor-ConstrainedBidiBFSVisitorTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o graph_ExtendPath Graph/graph_ExtendPath-ExtendPathTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o graph_DotIO Graph/graph_DotIO-DotIOTest.o ../Assembly/libassembly.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o graph_UndirectedGraph Graph/UndirectedGraphTest.o ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o Konnector_konnector Konnector/Konnector_konnector-konnectorTest.o ../Align/libalign.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o DBG_LoadAlgorithm DBG/DBG_LoadAlgorithm-LoadAlgorithmTest.o ../Assembly/libassembly.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o PairedDBG_LoadAlgorithm PairedDBG/PairedDBG_LoadAlgorithm-LoadAlgorithmTest.o ../PairedDBG/libpaireddbg.a ../Assembly/libassembly.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o PairedDBG_KmerPair PairedDBG/PairedDBG_KmerPair-KmerPairTest.o ../PairedDBG/libpaireddbg.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o PairedDBG_Dinuc PairedDBG/PairedDBG_Dinuc-DinucTest.o ../PairedDBG/libpaireddbg.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o PairedDBG_BranchRecord PairedDBG/PairedDBG_BranchRecord-BranchRecordTest.o ../PairedDBG/libpaireddbg.a ../DataLayer/libdatalayer.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o BloomDBG_BloomDBG BloomDBG/BloomDBG_BloomDBG-BloomDBGTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o BloomDBG_RollingHash BloomDBG/RollingHashTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o BloomDBG_RollingHashIterator BloomDBG/RollingHashIteratorTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o BloomDBG_HashAgnosticCascadingBloom BloomDBG/BloomDBG_HashAgnosticCascadingBloom-HashAgnosticCascadingBloomTest.o ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o BloomDBG_MaskedKmer BloomDBG/MaskedKmerTest.o ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o BloomDBG_SpacedSeed BloomDBG/SpacedSeedTest.o ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
g++ -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -DGTEST_USE_OWN_TR1_TUPLE=0 -L/usr/lib/openmpi/lib -Wl,-z,relro -Wl,-z,now -o BloomDBG_RollingBloomDBG BloomDBG/BloomDBG_RollingBloomDBG-RollingBloomDBGTest.o ../DataLayer/libdatalayer.a ../Common/libcommon.a ../lib/gtest-1.7.0/libgtest_main.a -ldl -lm
make[3]: Leaving directory '/<<PKGBUILDDIR>>/Unittest'
make check-TESTS
make[3]: Entering directory '/<<PKGBUILDDIR>>/Unittest'
make[4]: Entering directory '/<<PKGBUILDDIR>>/Unittest'
PASS: common_histogram
PASS: common_kmer
PASS: common_bitutil
PASS: common_stringutil
PASS: common_sequence
PASS: common_KmerIterator
PASS: common_sam
PASS: BloomFilter
PASS: Konnector_DBGBloom
PASS: graph_ConstrainedBFSVisitor
PASS: Konnector_DBGBloomAlgorithms
PASS: graph_BidirectionalBFS
PASS: graph_AllPathsSearch
PASS: graph_HashGraph
PASS: graph_ConstrainedBidiBFSVisitor
PASS: graph_ExtendPath
PASS: graph_DotIO
PASS: graph_UndirectedGraph
PASS: Konnector_konnector
PASS: PairedDBG_Dinuc
PASS: PairedDBG_KmerPair
PASS: PairedDBG_BranchRecord
PASS: BloomDBG_BloomDBG
PASS: BloomDBG_RollingHash
PASS: BloomDBG_RollingHashIterator
PASS: BloomDBG_RollingBloomDBG
PASS: BloomDBG_HashAgnosticCascadingBloom
PASS: BloomDBG_MaskedKmer
PASS: BloomDBG_SpacedSeed
PASS: PairedDBG_LoadAlgorithm
PASS: DBG_LoadAlgorithm
============================================================================
Testsuite summary for ABySS 2.0.2
============================================================================
# TOTAL: 31
# PASS: 31
# SKIP: 0
# XFAIL: 0
# FAIL: 0
# XPASS: 0
# ERROR: 0
============================================================================
make[4]: Leaving directory '/<<PKGBUILDDIR>>/Unittest'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/Unittest'
make[2]: Leaving directory '/<<PKGBUILDDIR>>/Unittest'
make[2]: Entering directory '/<<PKGBUILDDIR>>'
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
fakeroot debian/rules binary-arch
dh binary-arch --with autoreconf
dh_testroot -a
dh_prep -a
debian/rules override_dh_auto_install
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_install --destdir=debian/tmp
make -j4 install DESTDIR=/<<PKGBUILDDIR>>/debian/tmp AM_UPDATE_INFO_DIR=no
make[2]: Entering directory '/<<PKGBUILDDIR>>'
Making install in bin
make[3]: Entering directory '/<<PKGBUILDDIR>>/bin'
make[4]: Entering directory '/<<PKGBUILDDIR>>/bin'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c abyss-bowtie abyss-bowtie2 abyss-bwa abyss-bwasw abyss-bwamem abyss-fatoagp abyss-kaligner abyss-pe abyss-samtoafg abyss-tabtomd abyss-bloom-dist.mk abyss-dida '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
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'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/share/man/man1'
/usr/bin/install -c -m 644 flowchart.pdf flowchart_simplified.pdf '/<<PKGBUILDDIR>>/debian/tmp/usr/share/doc/abyss'
/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 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 Graph
make[3]: Entering directory '/<<PKGBUILDDIR>>/Graph'
make[4]: Entering directory '/<<PKGBUILDDIR>>/Graph'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c abyss-gc abyss-todot '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/Graph'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/Graph'
Making install in DataLayer
make[3]: Entering directory '/<<PKGBUILDDIR>>/DataLayer'
make[4]: Entering directory '/<<PKGBUILDDIR>>/DataLayer'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c abyss-fac abyss-tofastq '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/DataLayer'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/DataLayer'
Making install in DataBase
make[3]: Entering directory '/<<PKGBUILDDIR>>/DataBase'
make[4]: Entering directory '/<<PKGBUILDDIR>>/DataBase'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c abyss-db-txt '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c abyss-db-csv '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/DataBase'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/DataBase'
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 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 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'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c abyss-align abyss-mergepairs '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
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'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c ABYSS '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
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'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c ABYSS-P abyss-paired-dbg-mpi '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/Parallel'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/Parallel'
Making install in Bloom
make[3]: Entering directory '/<<PKGBUILDDIR>>/Bloom'
make[4]: Entering directory '/<<PKGBUILDDIR>>/Bloom'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c abyss-bloom '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/Bloom'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/Bloom'
Making install in BloomDBG
make[3]: Entering directory '/<<PKGBUILDDIR>>/BloomDBG'
make[4]: Entering directory '/<<PKGBUILDDIR>>/BloomDBG'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c abyss-bloom-dbg '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/BloomDBG'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/BloomDBG'
Making install in Konnector
make[3]: Entering directory '/<<PKGBUILDDIR>>/Konnector'
make[4]: Entering directory '/<<PKGBUILDDIR>>/Konnector'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c konnector '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/Konnector'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/Konnector'
Making install in Consensus
make[3]: Entering directory '/<<PKGBUILDDIR>>/Consensus'
make[4]: Entering directory '/<<PKGBUILDDIR>>/Consensus'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c Consensus '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
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'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c DAssembler '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
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'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c DistanceEst DistanceEst-ssq '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
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'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c KAligner '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
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'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c abyss-layout '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/Layout'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/Layout'
Making install in LogKmerCount
make[3]: Entering directory '/<<PKGBUILDDIR>>/LogKmerCount'
make[4]: Entering directory '/<<PKGBUILDDIR>>/LogKmerCount'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c logcounter '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/LogKmerCount'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/LogKmerCount'
Making install in Map
make[3]: Entering directory '/<<PKGBUILDDIR>>/Map'
make[4]: Entering directory '/<<PKGBUILDDIR>>/Map'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c abyss-index abyss-map abyss-map-ssq abyss-overlap '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
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'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c MergePaths MergeContigs PathConsensus '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
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'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c Overlap '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/Overlap'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/Overlap'
Making install in PairedDBG
make[3]: Entering directory '/<<PKGBUILDDIR>>/PairedDBG'
make[4]: Entering directory '/<<PKGBUILDDIR>>/PairedDBG'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c abyss-paired-dbg '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/PairedDBG'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/PairedDBG'
Making install in ParseAligns
make[3]: Entering directory '/<<PKGBUILDDIR>>/ParseAligns'
make[4]: Entering directory '/<<PKGBUILDDIR>>/ParseAligns'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c abyss-fixmate abyss-fixmate-ssq ParseAligns '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
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'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c PathOverlap '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
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'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c PopBubbles '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
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'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c abyss-scaffold abyss-junction abyss-longseqdist '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
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'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c SimpleGraph '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
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'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c abyss-filtergraph '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/FilterGraph'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/FilterGraph'
Making install in GapFiller
make[3]: Entering directory '/<<PKGBUILDDIR>>/GapFiller'
make[4]: Entering directory '/<<PKGBUILDDIR>>/GapFiller'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c abyss-gapfill '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/GapFiller'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/GapFiller'
Making install in Sealer
make[3]: Entering directory '/<<PKGBUILDDIR>>/Sealer'
make[4]: Entering directory '/<<PKGBUILDDIR>>/Sealer'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c abyss-sealer '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/Sealer'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/Sealer'
Making install in AdjList
make[3]: Entering directory '/<<PKGBUILDDIR>>/AdjList'
make[4]: Entering directory '/<<PKGBUILDDIR>>/AdjList'
make[4]: Nothing to be done for 'install-data-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/usr/bin/install -c AdjList '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/AdjList'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/AdjList'
Making install in lib/bloomfilter
make[3]: Entering directory '/<<PKGBUILDDIR>>/lib/bloomfilter'
make[4]: Entering directory '/<<PKGBUILDDIR>>/lib/bloomfilter'
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>>/lib/bloomfilter'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/lib/bloomfilter'
Making install in lib/rolling-hash
make[3]: Entering directory '/<<PKGBUILDDIR>>/lib/rolling-hash'
make[4]: Entering directory '/<<PKGBUILDDIR>>/lib/rolling-hash'
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>>/lib/rolling-hash'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/lib/rolling-hash'
Making install in lib/gtest-1.7.0
make[3]: Entering directory '/<<PKGBUILDDIR>>/lib/gtest-1.7.0'
make[4]: Entering directory '/<<PKGBUILDDIR>>/lib/gtest-1.7.0'
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>>/lib/gtest-1.7.0'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/lib/gtest-1.7.0'
Making install in Unittest
make[3]: Entering directory '/<<PKGBUILDDIR>>/Unittest'
make[4]: Entering directory '/<<PKGBUILDDIR>>/Unittest'
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>>/Unittest'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/Unittest'
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 CITATION.bib CITATION.md COPYRIGHT LICENSE 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 -a
dh_installdocs -a
dh_installchangelogs -a
dh_installman -a
dh_perl -a
dh_link -a
dh_strip_nondeterminism -a
dh_compress -a
dh_fixperms -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/DistanceEst contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-longseqdist contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/AdjList contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/ABYSS-P contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-todot contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-align contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-filtergraph contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-gapfill contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-fixmate-ssq contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-map contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-bloom-dbg contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/MergePaths contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/Overlap contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-gc contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-fac contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/bin/DistanceEst contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-mergepairs contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-sealer contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-db-csv contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/MergeContigs contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/konnector contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/PathConsensus contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/SimpleGraph contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/DistanceEst-ssq contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-junction contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-layout contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-scaffold contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-bloom contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/PopBubbles contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-paired-dbg-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-fixmate contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-overlap contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-paired-dbg contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/ABYSS contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/PathOverlap contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/logcounter contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-tofastq contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/KAligner contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/DAssembler contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/ParseAligns contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-index contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/bin/abyss-fixmate contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/Consensus contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/abyss/usr/lib/abyss/abyss-map-ssq contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/abyss/usr/lib/abyss/DistanceEst debian/abyss/usr/lib/abyss/abyss-longseqdist debian/abyss/usr/lib/abyss/AdjList debian/abyss/usr/lib/abyss/ABYSS-P debian/abyss/usr/lib/abyss/abyss-todot debian/abyss/usr/lib/abyss/abyss-align debian/abyss/usr/lib/abyss/abyss-filtergraph debian/abyss/usr/lib/abyss/abyss-gapfill debian/abyss/usr/lib/abyss/abyss-fixmate-ssq debian/abyss/usr/lib/abyss/abyss-map debian/abyss/usr/lib/abyss/abyss-bloom-dbg debian/abyss/usr/lib/abyss/MergePaths debian/abyss/usr/lib/abyss/Overlap debian/abyss/usr/lib/abyss/abyss-gc debian/abyss/usr/lib/abyss/abyss-fac debian/abyss/usr/bin/DistanceEst debian/abyss/usr/lib/abyss/abyss-mergepairs debian/abyss/usr/lib/abyss/abyss-sealer debian/abyss/usr/lib/abyss/abyss-db-csv debian/abyss/usr/lib/abyss/MergeContigs debian/abyss/usr/lib/abyss/konnector debian/abyss/usr/lib/abyss/PathConsensus debian/abyss/usr/lib/abyss/SimpleGraph debian/abyss/usr/lib/abyss/DistanceEst-ssq debian/abyss/usr/lib/abyss/abyss-junction debian/abyss/usr/lib/abyss/abyss-layout debian/abyss/usr/lib/abyss/abyss-scaffold debian/abyss/usr/lib/abyss/abyss-bloom debian/abyss/usr/lib/abyss/PopBubbles debian/abyss/usr/lib/abyss/abyss-paired-dbg-mpi debian/abyss/usr/lib/abyss/abyss-fixmate debian/abyss/usr/lib/abyss/abyss-overlap debian/abyss/usr/lib/abyss/abyss-paired-dbg debian/abyss/usr/lib/abyss/ABYSS debian/abyss/usr/lib/abyss/PathOverlap debian/abyss/usr/lib/abyss/logcounter debian/abyss/usr/lib/abyss/abyss-tofastq debian/abyss/usr/lib/abyss/KAligner debian/abyss/usr/lib/abyss/DAssembler debian/abyss/usr/lib/abyss/ParseAligns debian/abyss/usr/lib/abyss/abyss-index debian/abyss/usr/bin/abyss-fixmate debian/abyss/usr/lib/abyss/Consensus debian/abyss/usr/lib/abyss/abyss-map-ssq were not linked against ld-linux-armhf.so.3 (they use none of the library's symbols)
dh_installdeb -a
dh_gencontrol -a
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'abyss-dbgsym' in '../abyss-dbgsym_2.0.2-2_armhf.deb'.
dpkg-deb: building package 'abyss' in '../abyss_2.0.2-2_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genbuildinfo: warning: File::FcntlLock not available; using flock which is not NFS-safe
dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../abyss_2.0.2-2_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build abyss-2.0.2
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2016-12-22T08:20:46Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
abyss_2.0.2-2_armhf.changes:
----------------------------
Format: 1.8
Date: Sun, 11 Dec 2016 14:24:34 +0100
Source: abyss
Binary: abyss
Architecture: armhf
Version: 2.0.2-2
Distribution: stretch-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
abyss - de novo, parallel, sequence assembler for short reads
Closes: 847574
Changes:
abyss (2.0.2-2) unstable; urgency=medium
.
* FTBFS on mips and other big-endian architectures (Thanks for the patch
to Daniel Knezevic <Daniel.Knezevic@imgtec.com>)
Closes: #847574
* debhelper 10
* d/watch: version=4
Checksums-Sha1:
7dab2236db7fef211a6433af81b1b945711bfbb8 23999364 abyss-dbgsym_2.0.2-2_armhf.deb
15a8f37dcb45c0560cf68257d6924f9f3b4388b5 5998 abyss_2.0.2-2_armhf.buildinfo
bb90e9ce1f5d2abdb2d0a327207e7c011f4119ca 1111166 abyss_2.0.2-2_armhf.deb
Checksums-Sha256:
747a239a01698927a21793bc667def4b5bf32816b84a816cb91a13211d6119ec 23999364 abyss-dbgsym_2.0.2-2_armhf.deb
a65afb2068768370cc8c1bd5bafa7e543c0803bfa8ba39041ddfa13287e3cf7f 5998 abyss_2.0.2-2_armhf.buildinfo
9c0c158ec783c9e22b88c64dc00550d26135fdcfc5b62962875aeb4465d722c9 1111166 abyss_2.0.2-2_armhf.deb
Files:
58a4de224b7d20e1ddce21058aaf4add 23999364 debug extra abyss-dbgsym_2.0.2-2_armhf.deb
84fcbe68bb598f18331b2dcb7dee6184 5998 science optional abyss_2.0.2-2_armhf.buildinfo
e354aedd1f63262b81f5b2f9704861d6 1111166 science optional abyss_2.0.2-2_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
abyss-dbgsym_2.0.2-2_armhf.deb
------------------------------
new debian package, version 2.0.
size 23999364 bytes: control archive=2683 bytes.
2186 bytes, 13 lines control
4452 bytes, 42 lines md5sums
Package: abyss-dbgsym
Source: abyss
Version: 2.0.2-2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 24995
Depends: abyss (= 2.0.2-2)
Section: debug
Priority: extra
Homepage: http://www.bcgsc.ca/platform/bioinfo/software/abyss
Description: Debug symbols for abyss
Auto-Built-Package: debug-symbols
Build-Ids: 03f7ff5f052788ea76944852bfa2b7ba9233e3c7 0f3e1dac1343cc5e2605706273858b1690800496 10d9a17fcf344a0266717355ab1f2b6c0fff8d43 10d9a17fcf344a0266717355ab1f2b6c0fff8d43 1868715098ea9c7724bbf3dfd06f8c462e72ab4e 1cead0c126ce1017a5e2858ea19bb2d84d64b61b 2597a2949df088cdf61499acb1506da92e8ef778 35c078e12670236401792bda41d6ac8385dcbcf5 35fcf24ac62d04b6122fddfcf3e2a0b1b10af982 37f3f960452e7233c612d33c5237e61edd616e2b 39e4df28072818d1d3fd1908350091c80d9ff3a5 3d516753c9ab2c015866db3d703c2d3b017fbc53 3eb9d9b9f465b270681b061c47a67811f2ab4d1e 549b18f42e5e4ad591bb8083edf04db98c295cef 5be1f72c472bd2294e7440b9f3698b83aca69fc8 5cfb4089340ba8fd0e16c84b2b228fa5052755f0 6658dec083b0a9fa05e142e55ca7a76612d44081 67a99c7dee4873e7d476b2e42726239910a69a6e 69a7174694cd4d0e1d1ee9c4ed701c4ca7476985 6f51e17d4bbb2df92c34ff4183e699cf62dc4fd4 7335bba6f88a6c26668f5ffa0eb2891f26adac94 761b012de47ef9f2680d2a99afca639123283775 7ea54b7dec50de4f54b08f481cb8d347279d30dd 84904804abb17cfc14dfdcb727eaa749d254d78f 86a15095db29d14f76e72a2f8e22ee204d8c25f4 95f5145a47dca282c498373b2e8c557ee9adbb83 9ead395dbe95d18cc26f17847c4f18236ad2049c a34153571149f7386f8d20890856644f392ff939 acd2e1e9dc47d368391607351c91005dc29b00c7 ad08ab0f8ed7e07ee161932ebe6054b23b9a96fc b06e71087950e1fdf7e0f337b1fdfe22723c6918 b3e708eeb48b1e14e51fdf1caf4ded1b4409e875 be2614d6ca00acbf1abce3f8490d52a596e45efb c5b18d98c47662b99a0929fe2b383bf921889e39 c940cce673a15f3c25a355979841d21be0ce1f02 cd482dd0c4e66910e7995afdb701ec10afc79b3e d0bb6631e3db30ba84e4d648463273c796bb5e33 da11a804ec1d757db3a0d8388167f9b03556f8a3 dbea242186c8b732f409558d9dd227ddcccbeefb dd7b34072ccc8e3aa6f2a0201a67cac2f3020346 df10ee6c68e7ee8bdb4c6deea1db141a20a8002f df10ee6c68e7ee8bdb4c6deea1db141a20a8002f e8745ca0374f249846377068422f5aca42edbe86 ebbd7d4d015eee7400fb2a0f06bb7841e187f23c
drwxr-xr-x root/root 0 2016-12-11 13:24 ./
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/03/
-rw-r--r-- root/root 939488 2016-12-11 13:24 ./usr/lib/debug/.build-id/03/f7ff5f052788ea76944852bfa2b7ba9233e3c7.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/0f/
-rw-r--r-- root/root 844740 2016-12-11 13:24 ./usr/lib/debug/.build-id/0f/3e1dac1343cc5e2605706273858b1690800496.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/10/
-rw-r--r-- root/root 582840 2016-12-11 13:24 ./usr/lib/debug/.build-id/10/d9a17fcf344a0266717355ab1f2b6c0fff8d43.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/18/
-rw-r--r-- root/root 677320 2016-12-11 13:24 ./usr/lib/debug/.build-id/18/68715098ea9c7724bbf3dfd06f8c462e72ab4e.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/1c/
-rw-r--r-- root/root 832124 2016-12-11 13:24 ./usr/lib/debug/.build-id/1c/ead0c126ce1017a5e2858ea19bb2d84d64b61b.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/25/
-rw-r--r-- root/root 834600 2016-12-11 13:24 ./usr/lib/debug/.build-id/25/97a2949df088cdf61499acb1506da92e8ef778.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/35/
-rw-r--r-- root/root 534776 2016-12-11 13:24 ./usr/lib/debug/.build-id/35/c078e12670236401792bda41d6ac8385dcbcf5.debug
-rw-r--r-- root/root 191948 2016-12-11 13:24 ./usr/lib/debug/.build-id/35/fcf24ac62d04b6122fddfcf3e2a0b1b10af982.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/37/
-rw-r--r-- root/root 318328 2016-12-11 13:24 ./usr/lib/debug/.build-id/37/f3f960452e7233c612d33c5237e61edd616e2b.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/39/
-rw-r--r-- root/root 790948 2016-12-11 13:24 ./usr/lib/debug/.build-id/39/e4df28072818d1d3fd1908350091c80d9ff3a5.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/3d/
-rw-r--r-- root/root 410204 2016-12-11 13:24 ./usr/lib/debug/.build-id/3d/516753c9ab2c015866db3d703c2d3b017fbc53.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/3e/
-rw-r--r-- root/root 665936 2016-12-11 13:24 ./usr/lib/debug/.build-id/3e/b9d9b9f465b270681b061c47a67811f2ab4d1e.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/54/
-rw-r--r-- root/root 339616 2016-12-11 13:24 ./usr/lib/debug/.build-id/54/9b18f42e5e4ad591bb8083edf04db98c295cef.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/5b/
-rw-r--r-- root/root 1329680 2016-12-11 13:24 ./usr/lib/debug/.build-id/5b/e1f72c472bd2294e7440b9f3698b83aca69fc8.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/5c/
-rw-r--r-- root/root 772844 2016-12-11 13:24 ./usr/lib/debug/.build-id/5c/fb4089340ba8fd0e16c84b2b228fa5052755f0.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/66/
-rw-r--r-- root/root 480200 2016-12-11 13:24 ./usr/lib/debug/.build-id/66/58dec083b0a9fa05e142e55ca7a76612d44081.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/67/
-rw-r--r-- root/root 252960 2016-12-11 13:24 ./usr/lib/debug/.build-id/67/a99c7dee4873e7d476b2e42726239910a69a6e.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/69/
-rw-r--r-- root/root 702136 2016-12-11 13:24 ./usr/lib/debug/.build-id/69/a7174694cd4d0e1d1ee9c4ed701c4ca7476985.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/6f/
-rw-r--r-- root/root 504308 2016-12-11 13:24 ./usr/lib/debug/.build-id/6f/51e17d4bbb2df92c34ff4183e699cf62dc4fd4.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/73/
-rw-r--r-- root/root 282292 2016-12-11 13:24 ./usr/lib/debug/.build-id/73/35bba6f88a6c26668f5ffa0eb2891f26adac94.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/76/
-rw-r--r-- root/root 1020304 2016-12-11 13:24 ./usr/lib/debug/.build-id/76/1b012de47ef9f2680d2a99afca639123283775.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/7e/
-rw-r--r-- root/root 984896 2016-12-11 13:24 ./usr/lib/debug/.build-id/7e/a54b7dec50de4f54b08f481cb8d347279d30dd.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/84/
-rw-r--r-- root/root 657404 2016-12-11 13:24 ./usr/lib/debug/.build-id/84/904804abb17cfc14dfdcb727eaa749d254d78f.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/86/
-rw-r--r-- root/root 401848 2016-12-11 13:24 ./usr/lib/debug/.build-id/86/a15095db29d14f76e72a2f8e22ee204d8c25f4.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/95/
-rw-r--r-- root/root 797088 2016-12-11 13:24 ./usr/lib/debug/.build-id/95/f5145a47dca282c498373b2e8c557ee9adbb83.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/9e/
-rw-r--r-- root/root 255188 2016-12-11 13:24 ./usr/lib/debug/.build-id/9e/ad395dbe95d18cc26f17847c4f18236ad2049c.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/a3/
-rw-r--r-- root/root 928932 2016-12-11 13:24 ./usr/lib/debug/.build-id/a3/4153571149f7386f8d20890856644f392ff939.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/ac/
-rw-r--r-- root/root 586080 2016-12-11 13:24 ./usr/lib/debug/.build-id/ac/d2e1e9dc47d368391607351c91005dc29b00c7.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/ad/
-rw-r--r-- root/root 646016 2016-12-11 13:24 ./usr/lib/debug/.build-id/ad/08ab0f8ed7e07ee161932ebe6054b23b9a96fc.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/b0/
-rw-r--r-- root/root 639704 2016-12-11 13:24 ./usr/lib/debug/.build-id/b0/6e71087950e1fdf7e0f337b1fdfe22723c6918.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/b3/
-rw-r--r-- root/root 239204 2016-12-11 13:24 ./usr/lib/debug/.build-id/b3/e708eeb48b1e14e51fdf1caf4ded1b4409e875.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/be/
-rw-r--r-- root/root 1354936 2016-12-11 13:24 ./usr/lib/debug/.build-id/be/2614d6ca00acbf1abce3f8490d52a596e45efb.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/c5/
-rw-r--r-- root/root 246092 2016-12-11 13:24 ./usr/lib/debug/.build-id/c5/b18d98c47662b99a0929fe2b383bf921889e39.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/c9/
-rw-r--r-- root/root 628844 2016-12-11 13:24 ./usr/lib/debug/.build-id/c9/40cce673a15f3c25a355979841d21be0ce1f02.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/cd/
-rw-r--r-- root/root 347768 2016-12-11 13:24 ./usr/lib/debug/.build-id/cd/482dd0c4e66910e7995afdb701ec10afc79b3e.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/d0/
-rw-r--r-- root/root 627544 2016-12-11 13:24 ./usr/lib/debug/.build-id/d0/bb6631e3db30ba84e4d648463273c796bb5e33.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/da/
-rw-r--r-- root/root 807716 2016-12-11 13:24 ./usr/lib/debug/.build-id/da/11a804ec1d757db3a0d8388167f9b03556f8a3.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/db/
-rw-r--r-- root/root 232284 2016-12-11 13:24 ./usr/lib/debug/.build-id/db/ea242186c8b732f409558d9dd227ddcccbeefb.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/dd/
-rw-r--r-- root/root 421500 2016-12-11 13:24 ./usr/lib/debug/.build-id/dd/7b34072ccc8e3aa6f2a0201a67cac2f3020346.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/df/
-rw-r--r-- root/root 660064 2016-12-11 13:24 ./usr/lib/debug/.build-id/df/10ee6c68e7ee8bdb4c6deea1db141a20a8002f.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/e8/
-rw-r--r-- root/root 366228 2016-12-11 13:24 ./usr/lib/debug/.build-id/e8/745ca0374f249846377068422f5aca42edbe86.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/debug/.build-id/eb/
-rw-r--r-- root/root 386200 2016-12-11 13:24 ./usr/lib/debug/.build-id/eb/bd7d4d015eee7400fb2a0f06bb7841e187f23c.debug
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/share/
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/share/doc/
lrwxrwxrwx root/root 0 2016-12-11 13:24 ./usr/share/doc/abyss-dbgsym -> abyss
abyss_2.0.2-2_armhf.deb
-----------------------
new debian package, version 2.0.
size 1111166 bytes: control archive=2414 bytes.
695 bytes, 15 lines control
4121 bytes, 67 lines md5sums
Package: abyss
Version: 2.0.2-2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 6014
Depends: make, libc6 (>= 2.7), libgcc1 (>= 1:3.5), libgomp1 (>= 4.9), libopenmpi2, libsqlite3-0 (>= 3.5.9), libstdc++6 (>= 5.2), perl:any
Suggests: openmpi-bin
Section: 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.
drwxr-xr-x root/root 0 2016-12-11 13:24 ./
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/bin/
-rwxr-xr-x root/root 124444 2016-12-11 13:24 ./usr/bin/DistanceEst
-rwxr-xr-x root/root 116228 2016-12-11 13:24 ./usr/bin/abyss-fixmate
-rwxr-xr-x root/root 17831 2016-12-11 13:24 ./usr/bin/abyss-pe
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/lib/abyss/
-rwxr-xr-x root/root 218676 2016-12-11 13:24 ./usr/lib/abyss/ABYSS
-rwxr-xr-x root/root 259636 2016-12-11 13:24 ./usr/lib/abyss/ABYSS-P
-rwxr-xr-x root/root 149012 2016-12-11 13:24 ./usr/lib/abyss/AdjList
-rwxr-xr-x root/root 58896 2016-12-11 13:24 ./usr/lib/abyss/Consensus
-rwxr-xr-x root/root 83488 2016-12-11 13:24 ./usr/lib/abyss/DAssembler
-rwxr-xr-x root/root 124444 2016-12-11 13:24 ./usr/lib/abyss/DistanceEst
-rwxr-xr-x root/root 124444 2016-12-11 13:24 ./usr/lib/abyss/DistanceEst-ssq
-rwxr-xr-x root/root 165404 2016-12-11 13:24 ./usr/lib/abyss/KAligner
-rwxr-xr-x root/root 177700 2016-12-11 13:24 ./usr/lib/abyss/MergeContigs
-rwxr-xr-x root/root 149008 2016-12-11 13:24 ./usr/lib/abyss/MergePaths
-rwxr-xr-x root/root 140832 2016-12-11 13:24 ./usr/lib/abyss/Overlap
-rwxr-xr-x root/root 79360 2016-12-11 13:24 ./usr/lib/abyss/ParseAligns
-rwxr-xr-x root/root 292384 2016-12-11 13:24 ./usr/lib/abyss/PathConsensus
-rwxr-xr-x root/root 140800 2016-12-11 13:24 ./usr/lib/abyss/PathOverlap
-rwxr-xr-x root/root 149024 2016-12-11 13:24 ./usr/lib/abyss/PopBubbles
-rwxr-xr-x root/root 149020 2016-12-11 13:24 ./usr/lib/abyss/SimpleGraph
-rwxr-xr-x root/root 157200 2016-12-11 13:24 ./usr/lib/abyss/abyss-align
-rwxr-xr-x root/root 120384 2016-12-11 13:24 ./usr/lib/abyss/abyss-bloom
-rwxr-xr-x root/root 157224 2016-12-11 13:24 ./usr/lib/abyss/abyss-bloom-dbg
-rwxr-xr-x root/root 6491 2016-12-11 13:24 ./usr/lib/abyss/abyss-bloom-dist.mk
-rwxr-xr-x root/root 1135 2016-12-11 13:24 ./usr/lib/abyss/abyss-bowtie
-rwxr-xr-x root/root 1192 2016-12-11 13:24 ./usr/lib/abyss/abyss-bowtie2
-rwxr-xr-x root/root 1208 2016-12-11 13:24 ./usr/lib/abyss/abyss-bwa
-rwxr-xr-x root/root 1454 2016-12-11 13:24 ./usr/lib/abyss/abyss-bwamem
-rwxr-xr-x root/root 1362 2016-12-11 13:24 ./usr/lib/abyss/abyss-bwasw
-rwxr-xr-x root/root 54784 2016-12-11 13:24 ./usr/lib/abyss/abyss-db-csv
-rwxr-xr-x root/root 703 2016-12-11 13:24 ./usr/lib/abyss/abyss-db-txt
-rwxr-xr-x root/root 2739 2016-12-11 13:24 ./usr/lib/abyss/abyss-dida
-rwxr-xr-x root/root 67096 2016-12-11 13:24 ./usr/lib/abyss/abyss-fac
-rwxr-xr-x root/root 1872 2016-12-11 13:24 ./usr/lib/abyss/abyss-fatoagp
-rwxr-xr-x root/root 132636 2016-12-11 13:24 ./usr/lib/abyss/abyss-filtergraph
-rwxr-xr-x root/root 116228 2016-12-11 13:24 ./usr/lib/abyss/abyss-fixmate
-rwxr-xr-x root/root 116228 2016-12-11 13:24 ./usr/lib/abyss/abyss-fixmate-ssq
-rwxr-xr-x root/root 75296 2016-12-11 13:24 ./usr/lib/abyss/abyss-gapfill
-rwxr-xr-x root/root 75264 2016-12-11 13:24 ./usr/lib/abyss/abyss-gc
-rwxr-xr-x root/root 79368 2016-12-11 13:24 ./usr/lib/abyss/abyss-index
-rwxr-xr-x root/root 87556 2016-12-11 13:24 ./usr/lib/abyss/abyss-junction
-rwxr-xr-x root/root 39 2016-12-11 13:24 ./usr/lib/abyss/abyss-kaligner
-rwxr-xr-x root/root 99848 2016-12-11 13:24 ./usr/lib/abyss/abyss-layout
-rwxr-xr-x root/root 87564 2016-12-11 13:24 ./usr/lib/abyss/abyss-longseqdist
-rwxr-xr-x root/root 157204 2016-12-11 13:24 ./usr/lib/abyss/abyss-map
-rwxr-xr-x root/root 157204 2016-12-11 13:24 ./usr/lib/abyss/abyss-map-ssq
-rwxr-xr-x root/root 58920 2016-12-11 13:24 ./usr/lib/abyss/abyss-mergepairs
-rwxr-xr-x root/root 165416 2016-12-11 13:24 ./usr/lib/abyss/abyss-overlap
-rwxr-xr-x root/root 226872 2016-12-11 13:24 ./usr/lib/abyss/abyss-paired-dbg
-rwxr-xr-x root/root 267828 2016-12-11 13:24 ./usr/lib/abyss/abyss-paired-dbg-mpi
-rwxr-xr-x root/root 17831 2016-12-11 13:24 ./usr/lib/abyss/abyss-pe
-rwxr-xr-x root/root 4505 2016-12-11 13:24 ./usr/lib/abyss/abyss-samtoafg
-rwxr-xr-x root/root 181784 2016-12-11 13:24 ./usr/lib/abyss/abyss-scaffold
-rwxr-xr-x root/root 161356 2016-12-11 13:24 ./usr/lib/abyss/abyss-sealer
-rwxr-xr-x root/root 209 2016-12-11 13:24 ./usr/lib/abyss/abyss-tabtomd
-rwxr-xr-x root/root 120324 2016-12-11 13:24 ./usr/lib/abyss/abyss-todot
-rwxr-xr-x root/root 50708 2016-12-11 13:24 ./usr/lib/abyss/abyss-tofastq
-rwxr-xr-x root/root 185936 2016-12-11 13:24 ./usr/lib/abyss/konnector
-rwxr-xr-x root/root 63000 2016-12-11 13:24 ./usr/lib/abyss/logcounter
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/share/
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/share/doc/
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/share/doc/abyss/
-rw-r--r-- root/root 25913 2016-12-11 13:24 ./usr/share/doc/abyss/README.html
-rw-r--r-- root/root 7730 2016-10-21 21:48 ./usr/share/doc/abyss/README.md.gz
-rw-r--r-- root/root 2003 2016-12-11 13:24 ./usr/share/doc/abyss/changelog.Debian.gz
-rw-r--r-- root/root 13362 2016-10-21 21:48 ./usr/share/doc/abyss/changelog.gz
-rw-r--r-- root/root 6120 2016-12-11 13:24 ./usr/share/doc/abyss/copyright
-rw-r--r-- root/root 66778 2016-10-21 21:48 ./usr/share/doc/abyss/flowchart.pdf.gz
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/share/man/
drwxr-xr-x root/root 0 2016-12-11 13:24 ./usr/share/man/man1/
-rw-r--r-- root/root 1200 2016-12-11 13:24 ./usr/share/man/man1/ABYSS.1.gz
-rw-r--r-- root/root 3567 2016-12-11 13:24 ./usr/share/man/man1/abyss-pe.1.gz
-rw-r--r-- root/root 408 2016-12-11 13:24 ./usr/share/man/man1/abyss-tofastq.1.gz
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 440164
Build-Time: 2612
Distribution: stretch-staging
Host Architecture: armhf
Install-Time: 606
Job: abyss_2.0.2-2
Machine Architecture: armhf
Package: abyss
Package-Time: 3263
Source-Version: 2.0.2-2
Space: 440164
Status: successful
Version: 2.0.2-2
--------------------------------------------------------------------------------
Finished at 2016-12-22T08:20:46Z
Build needed 00:54:23, 440164k disc space