kmc →
2.2+dfsg-1 →
armhf → 2015-09-09 11:59:57
sbuild (Debian sbuild) 0.65.2 (24 Mar 2015) on bm-wb-01
╔══════════════════════════════════════════════════════════════════════════════╗
║ kmc 2.2+dfsg-1 (armhf) 09 Sep 2015 11:29 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: kmc
Version: 2.2+dfsg-1
Source Version: 2.2+dfsg-1
Distribution: stretch-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'build/kmc-l5dp42/kmc-2.2+dfsg' with '«PKGBUILDDIR»'
I: NOTICE: Log filtering will replace 'build/kmc-l5dp42' with '«BUILDDIR»'
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/stretch-staging-armhf-sbuild-bce22eda-92f5-4a07-89bf-64e5a4b66a5f' with '«CHROOT»'
┌──────────────────────────────────────────────────────────────────────────────┐
│ Update chroot │
└──────────────────────────────────────────────────────────────────────────────┘
Get:1 http://172.17.0.1 stretch-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1 stretch-staging/main Sources [8313 kB]
Get:3 http://172.17.0.1 stretch-staging/main armhf Packages [10.2 MB]
Ign http://172.17.0.1 stretch-staging/main Translation-en
Fetched 18.5 MB in 34s (543 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Fetch source files │
└──────────────────────────────────────────────────────────────────────────────┘
Check APT
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Checking available source versions...
Download source files with APT
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Reading package lists...
Building dependency tree...
Reading state information...
Need to get 461 kB of source archives.
Get:1 http://172.17.0.1/private/ stretch-staging/main kmc 2.2+dfsg-1 (dsc) [1962 B]
Get:2 http://172.17.0.1/private/ stretch-staging/main kmc 2.2+dfsg-1 (tar) [450 kB]
Get:3 http://172.17.0.1/private/ stretch-staging/main kmc 2.2+dfsg-1 (diff) [8352 B]
Fetched 461 kB in 0s (1828 kB/s)
Download complete and in download only mode
Check architectures
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Check dependencies
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Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/«BUILDDIR»/resolver-RDBpnq/apt_archive/sbuild-build-depends-core-dummy.deb'.
OK
Ign file: ./ InRelease
Get:1 file: ./ Release.gpg [299 B]
Get:2 file: ./ Release [2119 B]
Ign file: ./ Translation-en
Reading package lists...
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Install core build dependencies (apt-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
debconf: delaying package configuration, since apt-utils is not installed
0 upgraded, 1 newly installed, 0 to remove and 12 not upgraded.
Need to get 0 B/768 B of archives.
After this operation, 0 B of additional disk space will be used.
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(Reading database ... 12820 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
Merged Build-Depends: libc6-dev | libc-dev, gcc (>= 4:4.9.1), g++ (>= 4:4.9.1), make, dpkg-dev (>= 1.17.11), debhelper (>= 9), zlib1g-dev, libbz2-dev, libboost-all-dev (>= 1.51), help2man, d-shlibs
Filtered Build-Depends: libc6-dev, gcc (>= 4:4.9.1), g++ (>= 4:4.9.1), make, dpkg-dev (>= 1.17.11), debhelper (>= 9), zlib1g-dev, libbz2-dev, libboost-all-dev (>= 1.51), help2man, d-shlibs
dpkg-deb: building package 'sbuild-build-depends-kmc-dummy' in '/«BUILDDIR»/resolver-zHyUYx/apt_archive/sbuild-build-depends-kmc-dummy.deb'.
OK
Ign file: ./ InRelease
Get:1 file: ./ Release.gpg [299 B]
Get:2 file: ./ Release [2119 B]
Ign file: ./ Translation-en
Reading package lists...
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Install kmc build dependencies (apt-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following extra packages will be installed:
bsdmainutils d-shlibs debhelper file gettext gettext-base groff-base
help2man icu-devtools intltool-debian libasprintf0v5 libboost-all-dev
libboost-atomic-dev libboost-atomic1.58-dev libboost-atomic1.58.0
libboost-chrono-dev libboost-chrono1.58-dev libboost-chrono1.58.0
libboost-context-dev libboost-context1.58-dev libboost-context1.58.0
libboost-coroutine-dev libboost-coroutine1.58-dev libboost-date-time-dev
libboost-date-time1.58-dev libboost-date-time1.58.0 libboost-dev
libboost-exception-dev libboost-exception1.58-dev libboost-filesystem-dev
libboost-filesystem1.58-dev libboost-filesystem1.58.0 libboost-graph-dev
libboost-graph-parallel-dev libboost-graph-parallel1.58-dev
libboost-graph-parallel1.58.0 libboost-graph1.58-dev libboost-graph1.58.0
libboost-iostreams-dev libboost-iostreams1.58-dev libboost-iostreams1.58.0
libboost-locale-dev libboost-locale1.58-dev libboost-locale1.58.0
libboost-log-dev libboost-log1.58-dev libboost-log1.58.0 libboost-math-dev
libboost-math1.58-dev libboost-math1.58.0 libboost-mpi-dev
libboost-mpi-python-dev libboost-mpi-python1.58-dev
libboost-mpi-python1.58.0 libboost-mpi1.58-dev libboost-mpi1.58.0
libboost-program-options-dev libboost-program-options1.58-dev
libboost-program-options1.58.0 libboost-python-dev libboost-python1.58-dev
libboost-python1.58.0 libboost-random-dev libboost-random1.58-dev
libboost-random1.58.0 libboost-regex-dev libboost-regex1.58-dev
libboost-regex1.58.0 libboost-serialization-dev
libboost-serialization1.58-dev libboost-serialization1.58.0
libboost-signals-dev libboost-signals1.58-dev libboost-signals1.58.0
libboost-system-dev libboost-system1.58-dev libboost-system1.58.0
libboost-test-dev libboost-test1.58-dev libboost-test1.58.0
libboost-thread-dev libboost-thread1.58-dev libboost-thread1.58.0
libboost-timer-dev libboost-timer1.58-dev libboost-timer1.58.0
libboost-tools-dev libboost-wave-dev libboost-wave1.58-dev
libboost-wave1.58.0 libboost1.58-dev libboost1.58-tools-dev libbz2-dev
libcr0 libcroco3 libexpat1 libexpat1-dev libffi6 libgfortran3 libglib2.0-0
libhwloc-dev libhwloc5 libibverbs-dev libibverbs1 libicu-dev libicu55
libltdl-dev libltdl7 libmagic1 libopenmpi-dev libopenmpi1.6 libpipeline1
libpython-dev libpython-stdlib libpython2.7 libpython2.7-dev
libpython2.7-minimal libpython2.7-stdlib libsqlite3-0 libssl1.0.0
libunistring0 libxml2 man-db mime-support mpi-default-bin mpi-default-dev
openmpi-bin openmpi-common po-debconf python python-dev python-minimal
python2.7 python2.7-dev python2.7-minimal zlib1g zlib1g-dev
Suggested packages:
wamerican wordlist whois vacation dh-make gettext-doc groff libboost-doc
graphviz python3 libboost1.58-doc gccxml libmpfrc++-dev libntl-dev xsltproc
doxygen docbook-xml docbook-xsl default-jdk fop blcr-dkms
libhwloc-contrib-plugins icu-doc libtool-doc less www-browser gfortran
openmpi-checkpoint libmail-box-perl python-doc python-tk python2.7-doc
binfmt-support
Recommended packages:
curl wget lynx-cur autopoint libasprintf-dev libgettextpo-dev bzip2-doc
libglib2.0-data shared-mime-info xdg-user-dirs libhwloc-plugins libtool
xml-core libmail-sendmail-perl
The following NEW packages will be installed:
bsdmainutils d-shlibs debhelper file gettext gettext-base groff-base
help2man icu-devtools intltool-debian libasprintf0v5 libboost-all-dev
libboost-atomic-dev libboost-atomic1.58-dev libboost-atomic1.58.0
libboost-chrono-dev libboost-chrono1.58-dev libboost-chrono1.58.0
libboost-context-dev libboost-context1.58-dev libboost-context1.58.0
libboost-coroutine-dev libboost-coroutine1.58-dev libboost-date-time-dev
libboost-date-time1.58-dev libboost-date-time1.58.0 libboost-dev
libboost-exception-dev libboost-exception1.58-dev libboost-filesystem-dev
libboost-filesystem1.58-dev libboost-filesystem1.58.0 libboost-graph-dev
libboost-graph-parallel-dev libboost-graph-parallel1.58-dev
libboost-graph-parallel1.58.0 libboost-graph1.58-dev libboost-graph1.58.0
libboost-iostreams-dev libboost-iostreams1.58-dev libboost-iostreams1.58.0
libboost-locale-dev libboost-locale1.58-dev libboost-locale1.58.0
libboost-log-dev libboost-log1.58-dev libboost-log1.58.0 libboost-math-dev
libboost-math1.58-dev libboost-math1.58.0 libboost-mpi-dev
libboost-mpi-python-dev libboost-mpi-python1.58-dev
libboost-mpi-python1.58.0 libboost-mpi1.58-dev libboost-mpi1.58.0
libboost-program-options-dev libboost-program-options1.58-dev
libboost-program-options1.58.0 libboost-python-dev libboost-python1.58-dev
libboost-python1.58.0 libboost-random-dev libboost-random1.58-dev
libboost-random1.58.0 libboost-regex-dev libboost-regex1.58-dev
libboost-regex1.58.0 libboost-serialization-dev
libboost-serialization1.58-dev libboost-serialization1.58.0
libboost-signals-dev libboost-signals1.58-dev libboost-signals1.58.0
libboost-system-dev libboost-system1.58-dev libboost-system1.58.0
libboost-test-dev libboost-test1.58-dev libboost-test1.58.0
libboost-thread-dev libboost-thread1.58-dev libboost-thread1.58.0
libboost-timer-dev libboost-timer1.58-dev libboost-timer1.58.0
libboost-tools-dev libboost-wave-dev libboost-wave1.58-dev
libboost-wave1.58.0 libboost1.58-dev libboost1.58-tools-dev libbz2-dev
libcr0 libcroco3 libexpat1 libexpat1-dev libffi6 libgfortran3 libglib2.0-0
libhwloc-dev libhwloc5 libibverbs-dev libibverbs1 libicu-dev libicu55
libltdl-dev libltdl7 libmagic1 libopenmpi-dev libopenmpi1.6 libpipeline1
libpython-dev libpython-stdlib libpython2.7 libpython2.7-dev
libpython2.7-minimal libpython2.7-stdlib libsqlite3-0 libssl1.0.0
libunistring0 libxml2 man-db mime-support mpi-default-bin mpi-default-dev
openmpi-bin openmpi-common po-debconf python python-dev python-minimal
python2.7 python2.7-dev python2.7-minimal sbuild-build-depends-kmc-dummy
zlib1g-dev
The following packages will be upgraded:
zlib1g
1 upgraded, 137 newly installed, 0 to remove and 11 not upgraded.
Need to get 65.5 MB/65.6 MB of archives.
After this operation, 312 MB of additional disk space will be used.
Get:1 http://172.17.0.1/private/ stretch-staging/main groff-base armhf 1.22.3-1 [1085 kB]
Get:2 http://172.17.0.1/private/ stretch-staging/main bsdmainutils armhf 9.0.6 [177 kB]
Get:3 http://172.17.0.1/private/ stretch-staging/main libpipeline1 armhf 1.4.1-1 [23.9 kB]
Get:4 http://172.17.0.1/private/ stretch-staging/main zlib1g armhf 1:1.2.8.dfsg-2+b1 [80.9 kB]
Get:5 http://172.17.0.1/private/ stretch-staging/main man-db armhf 2.7.2-1 [973 kB]
Get:6 http://172.17.0.1/private/ stretch-staging/main libasprintf0v5 armhf 0.19.5.1-1 [32.0 kB]
Get:7 http://172.17.0.1/private/ stretch-staging/main libmagic1 armhf 1:5.22+15-2 [244 kB]
Get:8 http://172.17.0.1/private/ stretch-staging/main libpython2.7-minimal armhf 2.7.10-3 [380 kB]
Get:9 http://172.17.0.1/private/ stretch-staging/main mime-support all 3.59 [36.4 kB]
Get:10 http://172.17.0.1/private/ stretch-staging/main libexpat1 armhf 2.1.0-7 [59.8 kB]
Get:11 http://172.17.0.1/private/ stretch-staging/main libffi6 armhf 3.2.1-3 [18.5 kB]
Get:12 http://172.17.0.1/private/ stretch-staging/main libsqlite3-0 armhf 3.8.11.1-1 [391 kB]
Get:13 http://172.17.0.1/private/ stretch-staging/main libssl1.0.0 armhf 1.0.2d-1 [882 kB]
Get:14 http://172.17.0.1/private/ stretch-staging/main libpython2.7-stdlib armhf 2.7.10-3 [1815 kB]
Get:15 http://172.17.0.1/private/ stretch-staging/main libpython2.7 armhf 2.7.10-3 [932 kB]
Get:16 http://172.17.0.1/private/ stretch-staging/main libxml2 armhf 2.9.1+dfsg1-5 [703 kB]
Get:17 http://172.17.0.1/private/ stretch-staging/main python2.7-minimal armhf 2.7.10-3 [1163 kB]
Get:18 http://172.17.0.1/private/ stretch-staging/main python-minimal armhf 2.7.9-1 [40.1 kB]
Get:19 http://172.17.0.1/private/ stretch-staging/main python2.7 armhf 2.7.10-3 [259 kB]
Get:20 http://172.17.0.1/private/ stretch-staging/main libpython-stdlib armhf 2.7.9-1 [19.6 kB]
Get:21 http://172.17.0.1/private/ stretch-staging/main python armhf 2.7.9-1 [151 kB]
Get:22 http://172.17.0.1/private/ stretch-staging/main libglib2.0-0 armhf 2.44.1-1.1 [2312 kB]
Get:23 http://172.17.0.1/private/ stretch-staging/main libcroco3 armhf 0.6.8-3 [121 kB]
Get:24 http://172.17.0.1/private/ stretch-staging/main libgfortran3 armhf 5.2.1-16+rpi1 [154 kB]
Get:25 http://172.17.0.1/private/ stretch-staging/main libltdl7 armhf 2.4.2-1.11 [42.5 kB]
Get:26 http://172.17.0.1/private/ stretch-staging/main libexpat1-dev armhf 2.1.0-7 [114 kB]
Get:27 http://172.17.0.1/private/ stretch-staging/main libpython2.7-dev armhf 2.7.10-3 [18.0 MB]
Get:28 http://172.17.0.1/private/ stretch-staging/main libunistring0 armhf 0.9.3-5.2 [253 kB]
Get:29 http://172.17.0.1/private/ stretch-staging/main libhwloc5 armhf 1.11.0-1 [73.5 kB]
Get:30 http://172.17.0.1/private/ stretch-staging/main libboost-iostreams1.58.0 armhf 1.58.0+dfsg-3 [47.6 kB]
Get:31 http://172.17.0.1/private/ stretch-staging/main file armhf 1:5.22+15-2 [59.9 kB]
Get:32 http://172.17.0.1/private/ stretch-staging/main gettext-base armhf 0.19.5.1-1 [118 kB]
Get:33 http://172.17.0.1/private/ stretch-staging/main d-shlibs all 0.62 [16.9 kB]
Get:34 http://172.17.0.1/private/ stretch-staging/main gettext armhf 0.19.5.1-1 [1386 kB]
Get:35 http://172.17.0.1/private/ stretch-staging/main intltool-debian all 0.35.0+20060710.2 [25.9 kB]
Get:36 http://172.17.0.1/private/ stretch-staging/main po-debconf all 1.0.18 [248 kB]
Get:37 http://172.17.0.1/private/ stretch-staging/main debhelper all 9.20150811 [817 kB]
Get:38 http://172.17.0.1/private/ stretch-staging/main help2man armhf 1.47.1 [150 kB]
Get:39 http://172.17.0.1/private/ stretch-staging/main libicu55 armhf 55.1-4 [7378 kB]
Get:40 http://172.17.0.1/private/ stretch-staging/main icu-devtools armhf 55.1-4 [162 kB]
Get:41 http://172.17.0.1/private/ stretch-staging/main libboost1.58-dev armhf 1.58.0+dfsg-3 [6234 kB]
Get:42 http://172.17.0.1/private/ stretch-staging/main libboost-dev armhf 1.58.0.1 [3472 B]
Get:43 http://172.17.0.1/private/ stretch-staging/main libboost1.58-tools-dev armhf 1.58.0+dfsg-3 [1011 kB]
Get:44 http://172.17.0.1/private/ stretch-staging/main libboost-tools-dev armhf 1.58.0.1 [3294 B]
Get:45 http://172.17.0.1/private/ stretch-staging/main libboost-atomic1.58.0 armhf 1.58.0+dfsg-3 [29.3 kB]
Get:46 http://172.17.0.1/private/ stretch-staging/main libboost-atomic1.58-dev armhf 1.58.0+dfsg-3 [27.6 kB]
Get:47 http://172.17.0.1/private/ stretch-staging/main libboost-atomic-dev armhf 1.58.0.1 [3422 B]
Get:48 http://172.17.0.1/private/ stretch-staging/main libboost-system1.58.0 armhf 1.58.0+dfsg-3 [30.3 kB]
Get:49 http://172.17.0.1/private/ stretch-staging/main libboost-chrono1.58.0 armhf 1.58.0+dfsg-3 [35.0 kB]
Get:50 http://172.17.0.1/private/ stretch-staging/main libboost-chrono1.58-dev armhf 1.58.0+dfsg-3 [38.3 kB]
Get:51 http://172.17.0.1/private/ stretch-staging/main libboost-chrono-dev armhf 1.58.0.1 [3746 B]
Get:52 http://172.17.0.1/private/ stretch-staging/main libboost-thread1.58.0 armhf 1.58.0+dfsg-3 [62.3 kB]
Get:53 http://172.17.0.1/private/ stretch-staging/main libboost-context1.58.0 armhf 1.58.0+dfsg-3 [39.1 kB]
Get:54 http://172.17.0.1/private/ stretch-staging/main libboost-context1.58-dev armhf 1.58.0+dfsg-3 [39.7 kB]
Get:55 http://172.17.0.1/private/ stretch-staging/main libboost-context-dev armhf 1.58.0.1 [3316 B]
Get:56 http://172.17.0.1/private/ stretch-staging/main libboost-coroutine1.58-dev armhf 1.58.0+dfsg-3 [41.2 kB]
Get:57 http://172.17.0.1/private/ stretch-staging/main libboost-coroutine-dev armhf 1.58.0.1 [3386 B]
Get:58 http://172.17.0.1/private/ stretch-staging/main libboost-date-time1.58.0 armhf 1.58.0+dfsg-3 [40.0 kB]
Get:59 http://172.17.0.1/private/ stretch-staging/main libboost-serialization1.58.0 armhf 1.58.0+dfsg-3 [119 kB]
Get:60 http://172.17.0.1/private/ stretch-staging/main libboost-serialization1.58-dev armhf 1.58.0+dfsg-3 [169 kB]
Get:61 http://172.17.0.1/private/ stretch-staging/main libboost-date-time1.58-dev armhf 1.58.0+dfsg-3 [49.6 kB]
Get:62 http://172.17.0.1/private/ stretch-staging/main libboost-date-time-dev armhf 1.58.0.1 [3116 B]
Get:63 http://172.17.0.1/private/ stretch-staging/main libboost-exception1.58-dev armhf 1.58.0+dfsg-3 [26.9 kB]
Get:64 http://172.17.0.1/private/ stretch-staging/main libboost-exception-dev armhf 1.58.0.1 [3110 B]
Get:65 http://172.17.0.1/private/ stretch-staging/main libboost-filesystem1.58.0 armhf 1.58.0+dfsg-3 [56.4 kB]
Get:66 http://172.17.0.1/private/ stretch-staging/main libboost-system1.58-dev armhf 1.58.0+dfsg-3 [31.1 kB]
Get:67 http://172.17.0.1/private/ stretch-staging/main libboost-filesystem1.58-dev armhf 1.58.0+dfsg-3 [65.1 kB]
Get:68 http://172.17.0.1/private/ stretch-staging/main libboost-filesystem-dev armhf 1.58.0.1 [3148 B]
Get:69 http://172.17.0.1/private/ stretch-staging/main libboost-regex1.58.0 armhf 1.58.0+dfsg-3 [226 kB]
Get:70 http://172.17.0.1/private/ stretch-staging/main libboost-graph1.58.0 armhf 1.58.0+dfsg-3 [101 kB]
Get:71 http://172.17.0.1/private/ stretch-staging/main libboost-test1.58.0 armhf 1.58.0+dfsg-3 [179 kB]
Get:72 http://172.17.0.1/private/ stretch-staging/main libboost-test1.58-dev armhf 1.58.0+dfsg-3 [238 kB]
Get:73 http://172.17.0.1/private/ stretch-staging/main libboost-graph1.58-dev armhf 1.58.0+dfsg-3 [121 kB]
Get:74 http://172.17.0.1/private/ stretch-staging/main libboost-graph-dev armhf 1.58.0.1 [3218 B]
Get:75 http://172.17.0.1/private/ stretch-staging/main libcr0 armhf 0.8.5-2.2 [30.0 kB]
Get:76 http://172.17.0.1/private/ stretch-staging/main libibverbs1 armhf 1.1.8-1.1 [28.5 kB]
Get:77 http://172.17.0.1/private/ stretch-staging/main libopenmpi1.6 armhf 1.6.5-10+rpi1 [1240 kB]
Get:78 http://172.17.0.1/private/ stretch-staging/main libboost-mpi1.58.0 armhf 1.58.0+dfsg-3 [52.2 kB]
Get:79 http://172.17.0.1/private/ stretch-staging/main libboost-graph-parallel1.58.0 armhf 1.58.0+dfsg-3 [71.1 kB]
Get:80 http://172.17.0.1/private/ stretch-staging/main libboost-graph-parallel1.58-dev armhf 1.58.0+dfsg-3 [81.6 kB]
Get:81 http://172.17.0.1/private/ stretch-staging/main libboost-graph-parallel-dev armhf 1.58.0.1 [3244 B]
Get:82 http://172.17.0.1/private/ stretch-staging/main libicu-dev armhf 55.1-4 [8342 kB]
Get:83 http://172.17.0.1/private/ stretch-staging/main libboost-regex1.58-dev armhf 1.58.0+dfsg-3 [311 kB]
Get:84 http://172.17.0.1/private/ stretch-staging/main libboost-iostreams1.58-dev armhf 1.58.0+dfsg-3 [57.7 kB]
Get:85 http://172.17.0.1/private/ stretch-staging/main libboost-iostreams-dev armhf 1.58.0.1 [3112 B]
Get:86 http://172.17.0.1/private/ stretch-staging/main libboost-locale1.58.0 armhf 1.58.0+dfsg-3 [225 kB]
Get:87 http://172.17.0.1/private/ stretch-staging/main libboost-locale1.58-dev armhf 1.58.0+dfsg-3 [334 kB]
Get:88 http://172.17.0.1/private/ stretch-staging/main libboost-locale-dev armhf 1.58.0.1 [3448 B]
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Get:132 http://172.17.0.1/private/ stretch-staging/main libboost-wave1.58.0 armhf 1.58.0+dfsg-3 [178 kB]
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Get:137 http://172.17.0.1/private/ stretch-staging/main zlib1g-dev armhf 1:1.2.8.dfsg-2+b1 [197 kB]
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Setting up libboost-python1.58-dev (1.58.0+dfsg-3) ...
Setting up libboost-python-dev (1.58.0.1) ...
Setting up libboost-random1.58.0:armhf (1.58.0+dfsg-3) ...
Setting up libboost-random1.58-dev:armhf (1.58.0+dfsg-3) ...
Setting up libboost-random-dev:armhf (1.58.0.1) ...
Setting up libboost-regex-dev:armhf (1.58.0.1) ...
Setting up libboost-serialization-dev:armhf (1.58.0.1) ...
Setting up libboost-signals1.58.0:armhf (1.58.0+dfsg-3) ...
Setting up libboost-signals1.58-dev:armhf (1.58.0+dfsg-3) ...
Setting up libboost-signals-dev:armhf (1.58.0.1) ...
Setting up libboost-system-dev:armhf (1.58.0.1) ...
Setting up libboost-test-dev:armhf (1.58.0.1) ...
Setting up libboost-thread-dev:armhf (1.58.0.1) ...
Setting up libboost-timer1.58.0:armhf (1.58.0+dfsg-3) ...
Setting up libboost-timer1.58-dev:armhf (1.58.0+dfsg-3) ...
Setting up libboost-timer-dev:armhf (1.58.0.1) ...
Setting up libboost-wave1.58.0:armhf (1.58.0+dfsg-3) ...
Setting up libboost-wave1.58-dev:armhf (1.58.0+dfsg-3) ...
Setting up libboost-wave-dev:armhf (1.58.0.1) ...
Setting up libboost-all-dev (1.58.0.1) ...
Setting up libbz2-dev:armhf (1.0.6-8) ...
Setting up zlib1g-dev:armhf (1:1.2.8.dfsg-2+b1) ...
Setting up sbuild-build-depends-kmc-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.19-19) ...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build environment │
└──────────────────────────────────────────────────────────────────────────────┘
Kernel: Linux 3.19.0-trunk-armmp armhf (armv7l)
Toolchain package versions: binutils_2.25.1-1 dpkg-dev_1.18.2 g++-4.9_4.9.3-4 g++-5_5.2.1-16+rpi1 gcc-4.9_4.9.3-4 gcc-5_5.2.1-16+rpi1 libc6-dev_2.19-19 libstdc++-4.9-dev_4.9.3-4 libstdc++-5-dev_5.2.1-16+rpi1 libstdc++6_5.2.1-16+rpi1 linux-libc-dev_3.16.7-ckt4-1+rpi1+b2
Package versions: acl_2.2.52-2 adduser_3.113+nmu3 apt_1.0.9.10 base-files_9.2+rpi1 base-passwd_3.5.38 bash_4.3-13 binutils_2.25.1-1 bsdmainutils_9.0.6 bsdutils_1:2.26.2-9 build-essential_11.7 bzip2_1.0.6-8 coreutils_8.23-4 cpio_2.11+dfsg-4.1 cpp_4:5.2.1-4+rpi1 cpp-4.9_4.9.3-4 cpp-5_5.2.1-16+rpi1 d-shlibs_0.62 dash_0.5.7-4 debconf_1.5.57 debfoster_2.7-2 debhelper_9.20150811 debianutils_4.5.1 diffutils_1:3.3-1 dmsetup_2:1.02.104-1 dpkg_1.18.2 dpkg-dev_1.18.2 e2fslibs_1.42.13-1 e2fsprogs_1.42.13-1 fakeroot_1.20.2-1 file_1:5.22+15-2 findutils_4.4.2-9 g++_4:5.2.1-4+rpi1 g++-4.9_4.9.3-4 g++-5_5.2.1-16+rpi1 gcc_4:5.2.1-4+rpi1 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8-base_4.8.4-4 gcc-4.9_4.9.3-4 gcc-4.9-base_4.9.3-4 gcc-5_5.2.1-16+rpi1 gcc-5-base_5.2.1-16+rpi1 gettext_0.19.5.1-1 gettext-base_0.19.5.1-1 gnupg_1.4.19-5 gpgv_1.4.19-5 grep_2.21-2 groff-base_1.22.3-1 gzip_1.6-4 help2man_1.47.1 hostname_3.15 icu-devtools_55.1-4 init_1.23 init-system-helpers_1.23 initramfs-tools_0.120 initscripts_2.88dsf-59.2 insserv_1.14.0-5 intltool-debian_0.35.0+20060710.2 klibc-utils_2.0.4-2+rpi1 kmod_21-1 libacl1_2.2.52-2 libapparmor1_2.9.2-3 libapt-pkg4.12_1.0.9.10 libasan1_4.9.3-4 libasan2_5.2.1-16+rpi1 libasprintf0v5_0.19.5.1-1 libatomic1_5.2.1-16+rpi1 libattr1_1:2.4.47-2 libaudit-common_1:2.4.4-1 libaudit1_1:2.4.4-1 libblkid1_2.26.2-9 libboost-all-dev_1.58.0.1 libboost-atomic-dev_1.58.0.1 libboost-atomic1.58-dev_1.58.0+dfsg-3 libboost-atomic1.58.0_1.58.0+dfsg-3 libboost-chrono-dev_1.58.0.1 libboost-chrono1.58-dev_1.58.0+dfsg-3 libboost-chrono1.58.0_1.58.0+dfsg-3 libboost-context-dev_1.58.0.1 libboost-context1.58-dev_1.58.0+dfsg-3 libboost-context1.58.0_1.58.0+dfsg-3 libboost-coroutine-dev_1.58.0.1 libboost-coroutine1.58-dev_1.58.0+dfsg-3 libboost-date-time-dev_1.58.0.1 libboost-date-time1.58-dev_1.58.0+dfsg-3 libboost-date-time1.58.0_1.58.0+dfsg-3 libboost-dev_1.58.0.1 libboost-exception-dev_1.58.0.1 libboost-exception1.58-dev_1.58.0+dfsg-3 libboost-filesystem-dev_1.58.0.1 libboost-filesystem1.58-dev_1.58.0+dfsg-3 libboost-filesystem1.58.0_1.58.0+dfsg-3 libboost-graph-dev_1.58.0.1 libboost-graph-parallel-dev_1.58.0.1 libboost-graph-parallel1.58-dev_1.58.0+dfsg-3 libboost-graph-parallel1.58.0_1.58.0+dfsg-3 libboost-graph1.58-dev_1.58.0+dfsg-3 libboost-graph1.58.0_1.58.0+dfsg-3 libboost-iostreams-dev_1.58.0.1 libboost-iostreams1.58-dev_1.58.0+dfsg-3 libboost-iostreams1.58.0_1.58.0+dfsg-3 libboost-locale-dev_1.58.0.1 libboost-locale1.58-dev_1.58.0+dfsg-3 libboost-locale1.58.0_1.58.0+dfsg-3 libboost-log-dev_1.58.0.1 libboost-log1.58-dev_1.58.0+dfsg-3 libboost-log1.58.0_1.58.0+dfsg-3 libboost-math-dev_1.58.0.1 libboost-math1.58-dev_1.58.0+dfsg-3 libboost-math1.58.0_1.58.0+dfsg-3 libboost-mpi-dev_1.58.0.1 libboost-mpi-python-dev_1.58.0.1 libboost-mpi-python1.58-dev_1.58.0+dfsg-3 libboost-mpi-python1.58.0_1.58.0+dfsg-3 libboost-mpi1.58-dev_1.58.0+dfsg-3 libboost-mpi1.58.0_1.58.0+dfsg-3 libboost-program-options-dev_1.58.0.1 libboost-program-options1.58-dev_1.58.0+dfsg-3 libboost-program-options1.58.0_1.58.0+dfsg-3 libboost-python-dev_1.58.0.1 libboost-python1.58-dev_1.58.0+dfsg-3 libboost-python1.58.0_1.58.0+dfsg-3 libboost-random-dev_1.58.0.1 libboost-random1.58-dev_1.58.0+dfsg-3 libboost-random1.58.0_1.58.0+dfsg-3 libboost-regex-dev_1.58.0.1 libboost-regex1.58-dev_1.58.0+dfsg-3 libboost-regex1.58.0_1.58.0+dfsg-3 libboost-serialization-dev_1.58.0.1 libboost-serialization1.58-dev_1.58.0+dfsg-3 libboost-serialization1.58.0_1.58.0+dfsg-3 libboost-signals-dev_1.58.0.1 libboost-signals1.58-dev_1.58.0+dfsg-3 libboost-signals1.58.0_1.58.0+dfsg-3 libboost-system-dev_1.58.0.1 libboost-system1.58-dev_1.58.0+dfsg-3 libboost-system1.58.0_1.58.0+dfsg-3 libboost-test-dev_1.58.0.1 libboost-test1.58-dev_1.58.0+dfsg-3 libboost-test1.58.0_1.58.0+dfsg-3 libboost-thread-dev_1.58.0.1 libboost-thread1.58-dev_1.58.0+dfsg-3 libboost-thread1.58.0_1.58.0+dfsg-3 libboost-timer-dev_1.58.0.1 libboost-timer1.58-dev_1.58.0+dfsg-3 libboost-timer1.58.0_1.58.0+dfsg-3 libboost-tools-dev_1.58.0.1 libboost-wave-dev_1.58.0.1 libboost-wave1.58-dev_1.58.0+dfsg-3 libboost-wave1.58.0_1.58.0+dfsg-3 libboost1.58-dev_1.58.0+dfsg-3 libboost1.58-tools-dev_1.58.0+dfsg-3 libbz2-1.0_1.0.6-8 libbz2-dev_1.0.6-8 libc-bin_2.19-19 libc-dev-bin_2.19-19 libc6_2.19-19 libc6-dev_2.19-19 libcap2_1:2.24-11 libcap2-bin_1:2.24-11 libcc1-0_5.2.1-16+rpi1 libcloog-isl4_0.18.3-1 libcomerr2_1.42.13-1 libcr0_0.8.5-2.2 libcroco3_0.6.8-3 libcryptsetup4_2:1.6.6-5 libdb5.3_5.3.28-9 libdbus-1-3_1.8.20-1 libdebconfclient0_0.195 libdevmapper1.02.1_2:1.02.104-1 libdpkg-perl_1.18.2 libdrm2_2.4.64-1 libexpat1_2.1.0-7 libexpat1-dev_2.1.0-7 libfakeroot_1.20.2-1 libfdisk1_2.26.2-9 libffi6_3.2.1-3 libgc1c2_1:7.2d-6.4 libgcc-4.9-dev_4.9.3-4 libgcc-5-dev_5.2.1-16+rpi1 libgcc1_1:5.2.1-16+rpi1 libgcrypt20_1.6.3-2 libgdbm3_1.8.3-13.1 libgfortran3_5.2.1-16+rpi1 libglib2.0-0_2.44.1-1.1 libgmp10_2:6.0.0+dfsg-7+rpi1 libgomp1_5.2.1-16+rpi1 libgpg-error0_1.19-2 libhwloc-dev_1.11.0-1 libhwloc5_1.11.0-1 libibverbs-dev_1.1.8-1.1 libibverbs1_1.1.8-1.1 libicu-dev_55.1-4 libicu55_55.1-4 libisl13_0.14-2 libklibc_2.0.4-2+rpi1 libkmod2_21-1 liblocale-gettext-perl_1.05-9 libltdl-dev_2.4.2-1.11 libltdl7_2.4.2-1.11 liblzma5_5.1.1alpha+20120614-2.1 libmagic1_1:5.22+15-2 libmount1_2.26.2-9 libmpc3_1.0.3-1 libmpfr4_3.1.3-1 libncurses5_6.0+20150810-1 libncursesw5_6.0+20150810-1 libnih-dbus1_1.0.3-4.3 libnih1_1.0.3-4.3 libopenmpi-dev_1.6.5-10+rpi1 libopenmpi1.6_1.6.5-10+rpi1 libpam-modules_1.1.8-3.1 libpam-modules-bin_1.1.8-3.1 libpam-runtime_1.1.8-3.1 libpam0g_1.1.8-3.1 libpcre3_2:8.35-7 libpipeline1_1.4.1-1 libpng12-0_1.2.50-2 libprocps3_2:3.3.9-9 libprocps4_2:3.3.10-2 libpython-dev_2.7.9-1 libpython-stdlib_2.7.9-1 libpython2.7_2.7.10-3 libpython2.7-dev_2.7.10-3 libpython2.7-minimal_2.7.10-3 libpython2.7-stdlib_2.7.10-3 libreadline6_6.3-8 libseccomp2_2.2.3-1 libselinux1_2.3-2 libsemanage-common_2.3-1 libsemanage1_2.3-1 libsepol1_2.3-2 libslang2_2.3.0-2 libsmartcols1_2.26.2-9 libsqlite3-0_3.8.11.1-1 libss2_1.42.13-1 libssl1.0.0_1.0.2d-1 libstdc++-4.9-dev_4.9.3-4 libstdc++-5-dev_5.2.1-16+rpi1 libstdc++6_5.2.1-16+rpi1 libsystemd0_225-1 libtext-charwidth-perl_0.04-7+b4 libtext-iconv-perl_1.7-5+b5 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_2.3000-2 libtinfo5_6.0+20150810-1 libubsan0_5.2.1-16+rpi1 libudev1_225-1 libunistring0_0.9.3-5.2 libusb-0.1-4_2:0.1.12-25 libustr-1.0-1_1.0.4-5 libuuid1_2.26.2-9 libxml2_2.9.1+dfsg1-5 linux-libc-dev_3.16.7-ckt4-1+rpi1+b2 login_1:4.2-3 lsb-base_4.1+Debian13+rpi1+nmu1 make_4.0-8.2 makedev_2.3.1-93 man-db_2.7.2-1 mawk_1.3.3-17 mime-support_3.59 mount_2.26.2-9 mountall_2.54 mpi-default-bin_1.0.2+nmu2 mpi-default-dev_1.0.2+nmu2 multiarch-support_2.19-19 ncurses-base_6.0+20150810-1 ncurses-bin_6.0+20150810-1 openmpi-bin_1.6.5-10+rpi1 openmpi-common_1.6.5-10+rpi1 passwd_1:4.2-3 patch_2.7.5-1 perl_5.20.2-6 perl-base_5.20.2-6 perl-modules_5.20.2-6 plymouth_0.9.0-9 po-debconf_1.0.18 procps_2:3.3.10-2 python_2.7.9-1 python-dev_2.7.9-1 python-minimal_2.7.9-1 python2.7_2.7.10-3 python2.7-dev_2.7.10-3 python2.7-minimal_2.7.10-3 raspbian-archive-keyring_20120528.2 readline-common_6.3-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-kmc-dummy_0.invalid.0 sed_4.2.2-6.1 sensible-utils_0.0.9 startpar_0.59-3 systemd_225-1 systemd-sysv_225-1 sysv-rc_2.88dsf-59.2 sysvinit-utils_2.88dsf-59.2 tar_1.28-1 tzdata_2015f-1 udev_225-1 util-linux_2.26.2-9 xz-utils_5.1.1alpha+20120614-2.1 zlib1g_1:1.2.8.dfsg-2+b1 zlib1g-dev_1:1.2.8.dfsg-2+b1
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
└──────────────────────────────────────────────────────────────────────────────┘
Unpack source
─────────────
gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Wed Aug 26 11:12:59 2015 UTC using RSA key ID D1C646D1
gpgv: Can't check signature: public key not found
dpkg-source: warning: failed to verify signature on ./kmc_2.2+dfsg-1.dsc
dpkg-source: info: extracting kmc in kmc-2.2+dfsg
dpkg-source: info: unpacking kmc_2.2+dfsg.orig.tar.gz
dpkg-source: info: unpacking kmc_2.2+dfsg-1.debian.tar.xz
dpkg-source: info: applying disable-asmlib
dpkg-source: info: applying use-shared-libs
dpkg-source: info: applying allow-dry-clean
dpkg-source: info: applying hardening
Check disc space
────────────────
Sufficient free space for build
User Environment
────────────────
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
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-bce22eda-92f5-4a07-89bf-64e5a4b66a5f
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
dpkg-buildpackage
─────────────────
dpkg-buildpackage: source package kmc
dpkg-buildpackage: source version 2.2+dfsg-1
dpkg-buildpackage: source distribution unstable
dpkg-source --before-build kmc-2.2+dfsg
dpkg-buildpackage: host architecture armhf
fakeroot debian/rules clean
dh clean
dh_testdir
dh_auto_clean
make -j1 clean
make[1]: Entering directory '/«BUILDDIR»/kmc-2.2+dfsg'
rm -f kmer_counter/*.o
rm -f kmc_api/*.o
rm -f kmc_dump/*.o
rm -rf bin
make[1]: Leaving directory '/«BUILDDIR»/kmc-2.2+dfsg'
dh_clean
rm -f debian/kmc.substvars
rm -f debian/kmc.*.debhelper
rm -rf debian/kmc/
rm -rf debian/.debhelper/
rm -f debian/*.debhelper.log
rm -f debian/files
find . \( \( \
\( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS \) -prune -o -type f -a \
\( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \
-o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \
-o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \
-o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \
\) -exec rm -f {} + \) -o \
\( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \)
rm -f *-stamp
debian/rules build-arch
dh build-arch
dh_testdir -a
dh_auto_configure -a
dh_auto_build -a
make -j1
make[1]: Entering directory '/«BUILDDIR»/kmc-2.2+dfsg'
g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -O3 -fopenmp -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++11 -DDISABLE_ASMLIB -c kmer_counter/kmer_counter.cpp -o kmer_counter/kmer_counter.o
g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -O3 -fopenmp -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++11 -DDISABLE_ASMLIB -c kmer_counter/mmer.cpp -o kmer_counter/mmer.o
g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -O3 -fopenmp -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++11 -DDISABLE_ASMLIB -c kmer_counter/mem_disk_file.cpp -o kmer_counter/mem_disk_file.o
g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -O3 -fopenmp -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++11 -DDISABLE_ASMLIB -c kmer_counter/rev_byte.cpp -o kmer_counter/rev_byte.o
g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -O3 -fopenmp -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++11 -DDISABLE_ASMLIB -c kmer_counter/bkb_writer.cpp -o kmer_counter/bkb_writer.o
g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -O3 -fopenmp -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++11 -DDISABLE_ASMLIB -c kmer_counter/bkb_reader.cpp -o kmer_counter/bkb_reader.o
g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -O3 -fopenmp -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++11 -DDISABLE_ASMLIB -c kmer_counter/fastq_reader.cpp -o kmer_counter/fastq_reader.o
g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -O3 -fopenmp -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++11 -DDISABLE_ASMLIB -c kmer_counter/timer.cpp -o kmer_counter/timer.o
g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -O3 -fopenmp -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++11 -DDISABLE_ASMLIB -c kmer_counter/radix.cpp -o kmer_counter/radix.o
g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -O3 -fopenmp -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++11 -DDISABLE_ASMLIB -c kmer_counter/kb_completer.cpp -o kmer_counter/kb_completer.o
g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -O3 -fopenmp -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++11 -DDISABLE_ASMLIB -c kmer_counter/kb_storer.cpp -o kmer_counter/kb_storer.o
g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -O3 -fopenmp -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++11 -DDISABLE_ASMLIB -c kmer_counter/kmer.cpp -o kmer_counter/kmer.o
mkdir -p bin
g++ -Wl,-z,relro -lm -lz -lbz2 -fopenmp -O3 -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++11 -o bin/kmc kmer_counter/kmer_counter.o kmer_counter/mmer.o kmer_counter/mem_disk_file.o kmer_counter/rev_byte.o kmer_counter/bkb_writer.o kmer_counter/bkb_reader.o kmer_counter/fastq_reader.o kmer_counter/timer.o kmer_counter/radix.o kmer_counter/kb_completer.o kmer_counter/kb_storer.o kmer_counter/kmer.o
g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -O3 -fopenmp -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++11 -DDISABLE_ASMLIB -c kmc_dump/nc_utils.cpp -o kmc_dump/nc_utils.o
g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -O3 -fopenmp -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++11 -DDISABLE_ASMLIB -c kmc_api/mmer.cpp -o kmc_api/mmer.o
g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -O3 -fopenmp -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++11 -DDISABLE_ASMLIB -c kmc_dump/kmc_dump.cpp -o kmc_dump/kmc_dump.o
g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -O3 -fopenmp -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++11 -DDISABLE_ASMLIB -c kmc_api/kmc_file.cpp -o kmc_api/kmc_file.o
kmc_api/kmc_file.cpp: In member function 'void CKMCFile::Reload_sufix_file_buf()':
kmc_api/kmc_file.cpp:469:57: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result]
fread (sufix_file_buf, 1, (size_t) part_size, file_suf);
^
kmc_api/kmc_file.cpp: In member function 'bool CKMCFile::RestartListing()':
kmc_api/kmc_file.cpp:515:58: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result]
fread (sufix_file_buf, 1, (size_t) part_size, file_suf);
^
g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wall -O3 -fopenmp -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++11 -DDISABLE_ASMLIB -c kmc_api/kmer_api.cpp -o kmc_api/kmer_api.o
mkdir -p bin
g++ -Wl,-z,relro -lm -lz -lbz2 -fopenmp -O3 -Wl,--whole-archive -lpthread -Wl,--no-whole-archive -std=c++11 -o bin/kmc_dump kmc_dump/nc_utils.o kmc_api/mmer.o kmc_dump/kmc_dump.o kmc_api/kmc_file.o kmc_api/kmer_api.o
make[1]: Leaving directory '/«BUILDDIR»/kmc-2.2+dfsg'
dh_auto_test -a
fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
rm -f debian/kmc.substvars
rm -f debian/kmc.*.debhelper
rm -rf debian/kmc/
dh_auto_install -a
install -d debian/kmc
debian/rules override_dh_install
make[1]: Entering directory '/«BUILDDIR»/kmc-2.2+dfsg'
dh_install
install -d debian/kmc//bin
cp --reflink=auto -a ./bin/kmc debian/kmc//bin/
cp --reflink=auto -a ./bin/kmc_dump debian/kmc//bin/
make[1]: Leaving directory '/«BUILDDIR»/kmc-2.2+dfsg'
dh_installdocs -a
install -d debian/kmc/usr/share/doc/kmc
install -p -m0644 debian/copyright debian/kmc/usr/share/doc/kmc/copyright
dh_installchangelogs -a
install -p -m0644 debian/changelog debian/kmc/usr/share/doc/kmc/changelog.Debian
debian/rules override_dh_installman
make[1]: Entering directory '/«BUILDDIR»/kmc-2.2+dfsg'
mkdir -p /«BUILDDIR»/kmc-2.2+dfsg/debian/man
/«BUILDDIR»/kmc-2.2+dfsg/debian/usage_to_man
Can't exec "1": No such file or directory at /«BUILDDIR»/kmc-2.2+dfsg/debian/usage_to_man line 19.
Creating manpages
Manpage creation complete
Manpage creation complete
dh_installman --
install -d debian/kmc/usr/share/man/man1/
install -p -m0644 man/kmc.1 debian/kmc/usr/share/man/man1/kmc.1
install -p -m0644 man/kmc_dump.1 debian/kmc/usr/share/man/man1/kmc_dump.1
man --recode UTF-8 ./kmc\.1 > kmc\.1\.new
chmod 644 kmc.1.new
mv -f kmc.1.new kmc.1
man --recode UTF-8 ./kmc_dump\.1 > kmc_dump\.1\.new
chmod 644 kmc_dump.1.new
mv -f kmc_dump.1.new kmc_dump.1
make[1]: Leaving directory '/«BUILDDIR»/kmc-2.2+dfsg'
dh_perl -a
dh_link -a
dh_compress -a
cd debian/kmc
chmod a-x usr/share/man/man1/kmc.1 usr/share/man/man1/kmc_dump.1 usr/share/doc/kmc/changelog.Debian
gzip -9nf usr/share/man/man1/kmc.1 usr/share/man/man1/kmc_dump.1 usr/share/doc/kmc/changelog.Debian
cd '/«BUILDDIR»/kmc-2.2+dfsg'
dh_fixperms -a
find debian/kmc -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0
find debian/kmc ! -type l -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s
find debian/kmc/usr/share/doc -type f ! -regex 'debian/kmc/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644
find debian/kmc/usr/share/doc -type d -print0 2>/dev/null | xargs -0r chmod 0755
find debian/kmc/usr/share/man debian/kmc/usr/man/ debian/kmc/usr/X11*/man/ -type f -print0 2>/dev/null | xargs -0r chmod 0644
find debian/kmc -perm -5 -type f \( -name '*.so.*' -or -name '*.so' -or -name '*.la' -or -name '*.a' \) -print0 2>/dev/null | xargs -0r chmod 0644
find debian/kmc/usr/include -type f -print0 2>/dev/null | xargs -0r chmod 0644
find debian/kmc/usr/share/applications -type f -print0 2>/dev/null | xargs -0r chmod 0644
find debian/kmc -perm -5 -type f \( -name '*.cmxs' \) -print0 2>/dev/null | xargs -0r chmod 0644
find debian/kmc/usr/lib/arm-linux-gnueabihf/perl5/5.20 debian/kmc/usr/share/perl5 -type f -perm -5 -name '*.pm' -print0 2>/dev/null | xargs -0r chmod a-X
find debian/kmc/bin -type f -print0 2>/dev/null | xargs -0r chmod a+x
find debian/kmc/usr/lib -type f -name '*.ali' -print0 2>/dev/null | xargs -0r chmod uga-w
dh_strip -a
strip --remove-section=.comment --remove-section=.note debian/kmc/bin/kmc
strip --remove-section=.comment --remove-section=.note debian/kmc/bin/kmc_dump
dh_makeshlibs -a
rm -f debian/kmc/DEBIAN/shlibs
dh_shlibdeps -a
install -d debian/kmc/DEBIAN
dpkg-shlibdeps -Tdebian/kmc.substvars debian/kmc/bin/kmc debian/kmc/bin/kmc_dump
dpkg-shlibdeps: warning: debian/kmc/bin/kmc contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/kmc/bin/kmc_dump contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dh_installdeb -a
dh_gencontrol -a
echo misc:Depends= >> debian/kmc.substvars
echo misc:Pre-Depends= >> debian/kmc.substvars
dpkg-gencontrol -pkmc -ldebian/changelog -Tdebian/kmc.substvars -Pdebian/kmc
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
chmod 0644 debian/kmc/DEBIAN/control
chown 0:0 debian/kmc/DEBIAN/control
dh_md5sums -a
(cd debian/kmc >/dev/null ; find . -type f ! -regex './DEBIAN/.*' -printf '%P\0' | LC_ALL=C sort -z | xargs -r0 md5sum > DEBIAN/md5sums) >/dev/null
chmod 0644 debian/kmc/DEBIAN/md5sums
chown 0:0 debian/kmc/DEBIAN/md5sums
dh_builddeb -a
dpkg-deb --build debian/kmc ..
dpkg-deb: building package 'kmc' in '../kmc_2.2+dfsg-1_armhf.deb'.
dpkg-genchanges -B -mRaspbian wandboard test autobuilder <root@raspbian.org> >../kmc_2.2+dfsg-1_armhf.changes
dpkg-genchanges: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build kmc-2.2+dfsg
dpkg-buildpackage: binary-only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
Build finished at 20150909-1159
Finished
────────
I: Built successfully
┌──────────────────────────────────────────────────────────────────────────────┐
│ Post Build Chroot │
└──────────────────────────────────────────────────────────────────────────────┘
┌──────────────────────────────────────────────────────────────────────────────┐
│ Changes │
└──────────────────────────────────────────────────────────────────────────────┘
kmc_2.2+dfsg-1_armhf.changes:
─────────────────────────────
Format: 1.8
Date: Sun, 23 Aug 2015 15:32:16 +0000
Source: kmc
Binary: kmc
Architecture: armhf
Version: 2.2+dfsg-1
Distribution: stretch-staging
Urgency: low
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Sascha Steinbiss <sascha@steinbiss.name>
Description:
kmc - count kmers in genomic sequences
Changes:
kmc (2.2+dfsg-1) unstable; urgency=low
.
* New upstream release
* d/watch: Adjusted to use actual upstream's github repo
* Rework patches to fit new upstream build system
* Add citation
Checksums-Sha1:
24971232c9e8fc9dd935d3ab15837c0a0d24e32d 287654 kmc_2.2+dfsg-1_armhf.deb
Checksums-Sha256:
f10d403fba4d0c22dff8278cff07f01c9ca680cb7328ae7ff40011ab0dee9f0e 287654 kmc_2.2+dfsg-1_armhf.deb
Files:
904eb5ad3ac9740e1ebc0779db4136ff 287654 science optional kmc_2.2+dfsg-1_armhf.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
kmc_2.2+dfsg-1_armhf.deb
────────────────────────
new debian package, version 2.0.
size 287654 bytes: control archive=1290 bytes.
1609 bytes, 30 lines control
352 bytes, 6 lines md5sums
Package: kmc
Version: 2.2+dfsg-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 1223
Depends: libbz2-1.0, libc6 (>= 2.4), libgcc1 (>= 1:4.4.0), libgomp1 (>= 4.9), libstdc++6 (>= 5.2), zlib1g (>= 1:1.2.6)
Section: science
Priority: optional
Homepage: http://sun.aei.polsl.pl/kmc
Description: count kmers in genomic sequences
The kmc software is designed for counting k-mers (sequences of
consecutive k symbols) in a set of reads. K-mer counting is
important for many bioinformatics applications, e.g. developing de Bruijn
graph assemblers.
Building de Bruijn graphs is a commonly used approach for genome
assembly with data from second-generation sequencing.
Unfortunately, sequencing errors (frequent in practice)
result in huge memory requirements for de Bruijn graphs, as well
as long build time. One of the popular approaches to handle this
problem is filtering the input reads in such a way that unique k-mers
(very likely obtained as a result of an error) are discarded.
.
Thus, KMC scans the raw reads and produces a compact representation
of all non-unique reads accompanied with number of their occurrences.
The algorithm implemented in KMC makes use mostly of disk space rather
than RAM, which allows one to use KMC even on rather typical personal
computers. When run on high-end servers (what is necessary for KMC
competitors) it outperforms them in both memory requirements and
speed of computation. The disk space necessary for computation is in
order of the size of input data (usually it is smaller).
drwxr-xr-x root/root 0 2015-09-09 11:59 ./
drwxr-xr-x root/root 0 2015-09-09 11:59 ./bin/
-rwxr-xr-x root/root 1201892 2015-09-09 11:59 ./bin/kmc
-rwxr-xr-x root/root 34680 2015-09-09 11:59 ./bin/kmc_dump
drwxr-xr-x root/root 0 2015-09-09 11:59 ./usr/
drwxr-xr-x root/root 0 2015-09-09 11:59 ./usr/share/
drwxr-xr-x root/root 0 2015-09-09 11:59 ./usr/share/doc/
drwxr-xr-x root/root 0 2015-09-09 11:59 ./usr/share/doc/kmc/
-rw-r--r-- root/root 408 2015-08-26 11:08 ./usr/share/doc/kmc/changelog.Debian.gz
-rw-r--r-- root/root 1173 2015-08-26 11:08 ./usr/share/doc/kmc/copyright
drwxr-xr-x root/root 0 2015-09-09 11:59 ./usr/share/man/
drwxr-xr-x root/root 0 2015-09-09 11:59 ./usr/share/man/man1/
-rw-r--r-- root/root 1135 2015-09-09 11:59 ./usr/share/man/man1/kmc.1.gz
-rw-r--r-- root/root 614 2015-09-09 11:59 ./usr/share/man/man1/kmc_dump.1.gz
┌──────────────────────────────────────────────────────────────────────────────┐
│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
┌──────────────────────────────────────────────────────────────────────────────┐
│ Cleanup │
└──────────────────────────────────────────────────────────────────────────────┘
Purging /«BUILDDIR»
Not cleaning session: cloned chroot in use
┌──────────────────────────────────────────────────────────────────────────────┐
│ Summary │
└──────────────────────────────────────────────────────────────────────────────┘
Build Architecture: armhf
Build-Space: 55188
Build-Time: 1183
Distribution: stretch-staging
Host Architecture: armhf
Install-Time: 561
Job: kmc_2.2+dfsg-1
Machine Architecture: armhf
Package: kmc
Package-Time: 1806
Source-Version: 2.2+dfsg-1
Space: 55188
Status: successful
Version: 2.2+dfsg-1
────────────────────────────────────────────────────────────────────────────────
Finished at 20150909-1159
Build needed 00:30:06, 55188k disc space