murasaki →
1.68.6-2 →
armhf → 2015-06-30 15:05:56
sbuild (Debian sbuild) 0.65.2 (24 Mar 2015) on bm-wb-04
╔══════════════════════════════════════════════════════════════════════════════╗
║ murasaki 1.68.6-2 (armhf) 30 Jun 2015 14:25 ║
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Package: murasaki
Version: 1.68.6-2
Source Version: 1.68.6-2
Distribution: stretch-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'build/murasaki-kzd1VB/murasaki-1.68.6' with '«PKGBUILDDIR»'
I: NOTICE: Log filtering will replace 'build/murasaki-kzd1VB' with '«BUILDDIR»'
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/stretch-staging-armhf-sbuild-b229d041-4f4a-4064-b19d-031524d62df6' 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 [8018 kB]
Get:3 http://172.17.0.1 stretch-staging/main armhf Packages [9849 kB]
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┌──────────────────────────────────────────────────────────────────────────────┐
│ Fetch source files │
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Building dependency tree...
NOTICE: 'murasaki' packaging is maintained in the 'Svn' version control system at:
svn://anonscm.debian.org/debian-med/trunk/packages/murasaki/trunk/
Need to get 316 kB of source archives.
Get:1 http://172.17.0.1/private/ stretch-staging/main murasaki 1.68.6-2 (dsc) [2244 B]
Get:2 http://172.17.0.1/private/ stretch-staging/main murasaki 1.68.6-2 (tar) [308 kB]
Get:3 http://172.17.0.1/private/ stretch-staging/main murasaki 1.68.6-2 (diff) [5780 B]
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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-TkMWAX/apt_archive/sbuild-build-depends-core-dummy.deb'.
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┌──────────────────────────────────────────────────────────────────────────────┐
│ Install core build dependencies (apt-based resolver) │
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Installing build dependencies
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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 76 not upgraded.
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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), libboost-regex-dev, libboost-iostreams-dev, libboost-filesystem-dev, libterm-readkey-perl, libtext-wrapper-perl, libcrypto++-dev, libpstreams-dev, libopenmpi-dev
Filtered Build-Depends: libc6-dev, gcc (>= 4:4.9.1), g++ (>= 4:4.9.1), make, dpkg-dev (>= 1.17.11), debhelper (>= 9), libboost-regex-dev, libboost-iostreams-dev, libboost-filesystem-dev, libterm-readkey-perl, libtext-wrapper-perl, libcrypto++-dev, libpstreams-dev, libopenmpi-dev
dpkg-deb: building package `sbuild-build-depends-murasaki-dummy' in `/«BUILDDIR»/resolver-cOCTlt/apt_archive/sbuild-build-depends-murasaki-dummy.deb'.
OK
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┌──────────────────────────────────────────────────────────────────────────────┐
│ Install murasaki 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 debhelper file gcc-5-base gettext gettext-base groff-base
icu-devtools intltool-debian libasprintf0c2 libboost-filesystem-dev
libboost-filesystem1.55-dev libboost-filesystem1.55.0 libboost-iostreams-dev
libboost-iostreams1.55-dev libboost-iostreams1.55.0 libboost-regex-dev
libboost-regex1.55-dev libboost-regex1.55.0 libboost-system1.55-dev
libboost-system1.55.0 libboost1.55-dev libcr0 libcroco3 libcrypto++-dev
libcrypto++9 libffi6 libgfortran3 libglib2.0-0 libhwloc-dev libhwloc5
libibverbs-dev libibverbs1 libicu-dev libicu52 libltdl-dev libltdl7
libmagic1 libopenmpi-dev libopenmpi1.6 libpipeline1 libpstreams-dev
libterm-readkey-perl libtext-wrapper-perl libunistring0 libxml2 man-db
openmpi-common po-debconf
Suggested packages:
wamerican wordlist whois vacation dh-make gettext-doc groff libboost1.55-doc
libboost-atomic1.55-dev libboost-chrono1.55-dev libboost-context1.55-dev
libboost-coroutine1.55-dev libboost-date-time1.55-dev
libboost-exception1.55-dev libboost-graph1.55-dev
libboost-graph-parallel1.55-dev libboost-locale1.55-dev libboost-log1.55-dev
libboost-math1.55-dev libboost-mpi1.55-dev libboost-mpi-python1.55-dev
libboost-program-options1.55-dev libboost-python1.55-dev
libboost-random1.55-dev libboost-serialization1.55-dev
libboost-signals1.55-dev libboost-test1.55-dev libboost-thread1.55-dev
libboost-timer1.55-dev libboost-wave1.55-dev libboost1.55-tools-dev
libmpfrc++-dev libntl-dev blcr-dkms libhwloc-contrib-plugins icu-doc
libtool-doc less www-browser libmail-box-perl
Recommended packages:
curl wget lynx-cur autopoint libasprintf-dev libgettextpo-dev
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 debhelper file gcc-5-base gettext gettext-base groff-base
icu-devtools intltool-debian libasprintf0c2 libboost-filesystem-dev
libboost-filesystem1.55-dev libboost-filesystem1.55.0 libboost-iostreams-dev
libboost-iostreams1.55-dev libboost-iostreams1.55.0 libboost-regex-dev
libboost-regex1.55-dev libboost-regex1.55.0 libboost-system1.55-dev
libboost-system1.55.0 libboost1.55-dev libcr0 libcroco3 libcrypto++-dev
libcrypto++9 libffi6 libgfortran3 libglib2.0-0 libhwloc-dev libhwloc5
libibverbs-dev libibverbs1 libicu-dev libicu52 libltdl-dev libltdl7
libmagic1 libopenmpi-dev libopenmpi1.6 libpipeline1 libpstreams-dev
libterm-readkey-perl libtext-wrapper-perl libunistring0 libxml2 man-db
openmpi-common po-debconf sbuild-build-depends-murasaki-dummy
0 upgraded, 50 newly installed, 0 to remove and 76 not upgraded.
Need to get 36.5 MB/36.5 MB of archives.
After this operation, 220 MB of additional disk space will be used.
Get:1 http://172.17.0.1/private/ stretch-staging/main libboost-iostreams1.55.0 armhf 1.55.0+dfsg-3 [46.6 kB]
Get:2 http://172.17.0.1/private/ stretch-staging/main libpipeline1 armhf 1.4.0-1 [24.0 kB]
Get:3 http://172.17.0.1/private/ stretch-staging/main groff-base armhf 1.22.3-1 [1085 kB]
Get:4 http://172.17.0.1/private/ stretch-staging/main bsdmainutils armhf 9.0.6 [177 kB]
Get:5 http://172.17.0.1/private/ stretch-staging/main man-db armhf 2.7.0.2-5 [972 kB]
Get:6 http://172.17.0.1/private/ stretch-staging/main libasprintf0c2 armhf 0.19.4-1 [31.5 kB]
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Get:8 http://172.17.0.1/private/ stretch-staging/main libxml2 armhf 2.9.1+dfsg1-5 [703 kB]
Get:9 http://172.17.0.1/private/ stretch-staging/main libboost-system1.55.0 armhf 1.55.0+dfsg-3 [29.9 kB]
Get:10 http://172.17.0.1/private/ stretch-staging/main libboost-filesystem1.55.0 armhf 1.55.0+dfsg-3 [53.3 kB]
Get:11 http://172.17.0.1/private/ stretch-staging/main libicu52 armhf 52.1-9 [6554 kB]
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Get:14 http://172.17.0.1/private/ stretch-staging/main libglib2.0-0 armhf 2.44.1-1.1 [2312 kB]
Get:15 http://172.17.0.1/private/ stretch-staging/main libcroco3 armhf 0.6.8-3 [121 kB]
Get:16 http://172.17.0.1/private/ stretch-staging/main gcc-5-base armhf 5.1.1-9+rpi1 [165 kB]
Get:17 http://172.17.0.1/private/ stretch-staging/main libgfortran3 armhf 5.1.1-9+rpi1 [154 kB]
Get:18 http://172.17.0.1/private/ stretch-staging/main libltdl7 armhf 2.4.2-1.11 [42.5 kB]
Get:19 http://172.17.0.1/private/ stretch-staging/main libunistring0 armhf 0.9.3-5.2 [253 kB]
Get:20 http://172.17.0.1/private/ stretch-staging/main libhwloc5 armhf 1.11.0-1 [73.5 kB]
Get:21 http://172.17.0.1/private/ stretch-staging/main file armhf 1:5.22+15-2 [59.9 kB]
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Get:27 http://172.17.0.1/private/ stretch-staging/main icu-devtools armhf 52.1-9 [159 kB]
Get:28 http://172.17.0.1/private/ stretch-staging/main libboost1.55-dev armhf 1.55.0+dfsg-3 [5809 kB]
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Get:31 http://172.17.0.1/private/ stretch-staging/main libboost-filesystem-dev armhf 1.55.0.2 [3048 B]
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Get:33 http://172.17.0.1/private/ stretch-staging/main libboost-regex1.55-dev armhf 1.55.0+dfsg-3 [322 kB]
Get:34 http://172.17.0.1/private/ stretch-staging/main libboost-iostreams1.55-dev armhf 1.55.0+dfsg-3 [55.6 kB]
Get:35 http://172.17.0.1/private/ stretch-staging/main libboost-iostreams-dev armhf 1.55.0.2 [3020 B]
Get:36 http://172.17.0.1/private/ stretch-staging/main libboost-regex-dev armhf 1.55.0.2 [3290 B]
Get:37 http://172.17.0.1/private/ stretch-staging/main libcr0 armhf 0.8.5-2.2 [30.0 kB]
Get:38 http://172.17.0.1/private/ stretch-staging/main libcrypto++9 armhf 5.6.1-6 [1203 kB]
Get:39 http://172.17.0.1/private/ stretch-staging/main libcrypto++-dev armhf 5.6.1-6 [3311 kB]
Get:40 http://172.17.0.1/private/ stretch-staging/main libltdl-dev armhf 2.4.2-1.11 [155 kB]
Get:41 http://172.17.0.1/private/ stretch-staging/main libpstreams-dev all 0.8.0-2 [125 kB]
Get:42 http://172.17.0.1/private/ stretch-staging/main libterm-readkey-perl armhf 2.32-2 [26.2 kB]
Get:43 http://172.17.0.1/private/ stretch-staging/main libtext-wrapper-perl all 1.05-1 [11.6 kB]
Get:44 http://172.17.0.1/private/ stretch-staging/main libhwloc-dev armhf 1.11.0-1 [131 kB]
Get:45 http://172.17.0.1/private/ stretch-staging/main libibverbs1 armhf 1.1.8-1.1 [28.5 kB]
Get:46 http://172.17.0.1/private/ stretch-staging/main libibverbs-dev armhf 1.1.8-1.1 [82.6 kB]
Get:47 http://172.17.0.1/private/ stretch-staging/main libopenmpi1.6 armhf 1.6.5-9.2+rpi1 [1241 kB]
Get:48 http://172.17.0.1/private/ stretch-staging/main openmpi-common all 1.6.5-9.2+rpi1 [111 kB]
Get:49 http://172.17.0.1/private/ stretch-staging/main libopenmpi-dev armhf 1.6.5-9.2+rpi1 [449 kB]
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Preparing to unpack .../sbuild-build-depends-murasaki-dummy.deb ...
Unpacking sbuild-build-depends-murasaki-dummy (0.invalid.0) ...
Setting up libboost-iostreams1.55.0:armhf (1.55.0+dfsg-3) ...
Setting up libpipeline1:armhf (1.4.0-1) ...
Setting up groff-base (1.22.3-1) ...
Setting up bsdmainutils (9.0.6) ...
update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode
Setting up man-db (2.7.0.2-5) ...
Not building database; man-db/auto-update is not 'true'.
Setting up libasprintf0c2:armhf (0.19.4-1) ...
Setting up libmagic1:armhf (1:5.22+15-2) ...
Setting up libxml2:armhf (2.9.1+dfsg1-5) ...
Setting up libboost-system1.55.0:armhf (1.55.0+dfsg-3) ...
Setting up libboost-filesystem1.55.0:armhf (1.55.0+dfsg-3) ...
Setting up libicu52:armhf (52.1-9) ...
Setting up libboost-regex1.55.0:armhf (1.55.0+dfsg-3) ...
Setting up libffi6:armhf (3.1-2) ...
Setting up libglib2.0-0:armhf (2.44.1-1.1) ...
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Setting up libcroco3:armhf (0.6.8-3) ...
Setting up gcc-5-base:armhf (5.1.1-9+rpi1) ...
Setting up libgfortran3:armhf (5.1.1-9+rpi1) ...
Setting up libltdl7:armhf (2.4.2-1.11) ...
Setting up libunistring0:armhf (0.9.3-5.2) ...
Setting up libhwloc5:armhf (1.11.0-1) ...
Setting up file (1:5.22+15-2) ...
Setting up gettext-base (0.19.4-1) ...
Setting up gettext (0.19.4-1) ...
Setting up intltool-debian (0.35.0+20060710.2) ...
Setting up po-debconf (1.0.18) ...
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Setting up icu-devtools (52.1-9) ...
Setting up libboost1.55-dev:armhf (1.55.0+dfsg-3) ...
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update-alternatives: using /usr/lib/openmpi/include to provide /usr/include/mpi (mpi) in auto mode
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Processing triggers for libc-bin (2.19-18) ...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build environment │
└──────────────────────────────────────────────────────────────────────────────┘
Kernel: Linux 3.19.0-trunk-armmp armhf (armv7l)
Toolchain package versions: binutils_2.25-5 dpkg-dev_1.17.25 g++-4.9_4.9.2-10 gcc-4.9_4.9.2-10 libc6-dev_2.19-18 libstdc++-4.9-dev_4.9.2-10 libstdc++6_4.9.2-10 linux-libc-dev_3.16.7-ckt4-1+rpi1
Package versions: acl_2.2.52-2 adduser_3.113+nmu3 apt_1.0.9.8 base-files_8+rpi1 base-passwd_3.5.37 bash_4.3-11 binutils_2.25-5 bsdmainutils_9.0.6 bsdutils_1:2.25.2-6 build-essential_11.7 bzip2_1.0.6-7 coreutils_8.23-4 cpio_2.11+dfsg-4.1 cpp_4:4.9.2-2 cpp-4.9_4.9.2-10 dash_0.5.7-4 debconf_1.5.56 debconf-i18n_1.5.56 debfoster_2.7-2 debhelper_9.20150507 debianutils_4.4 diffutils_1:3.3-1 dmsetup_2:1.02.90-2.2 dpkg_1.17.25 dpkg-dev_1.17.25 e2fslibs_1.42.12-1.1 e2fsprogs_1.42.12-1.1 fakeroot_1.20.2-1 file_1:5.22+15-2 findutils_4.4.2-9 g++_4:4.9.2-2 g++-4.9_4.9.2-10 gcc_4:4.9.2-2 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8-base_4.8.4-1 gcc-4.9_4.9.2-10 gcc-4.9-base_4.9.2-10 gcc-5-base_5.1.1-9+rpi1 gettext_0.19.4-1 gettext-base_0.19.4-1 gnupg_1.4.18-7 gpgv_1.4.18-7 grep_2.20-4.1 groff-base_1.22.3-1 gzip_1.6-4 hostname_3.15 icu-devtools_52.1-9 init_1.22 init-system-helpers_1.22 initramfs-tools_0.120 initscripts_2.88dsf-59 insserv_1.14.0-5 intltool-debian_0.35.0+20060710.2 klibc-utils_2.0.4-2+rpi1 kmod_18-3 libacl1_2.2.52-2 libapt-pkg4.12_1.0.9.8 libasan1_4.9.2-10 libasprintf0c2_0.19.4-1 libatomic1_4.9.2-10 libattr1_1:2.4.47-2 libaudit-common_1:2.4-1 libaudit1_1:2.4-1 libblkid1_2.25.2-6 libboost-filesystem-dev_1.55.0.2 libboost-filesystem1.55-dev_1.55.0+dfsg-3 libboost-filesystem1.55.0_1.55.0+dfsg-3 libboost-iostreams-dev_1.55.0.2 libboost-iostreams1.55-dev_1.55.0+dfsg-3 libboost-iostreams1.55.0_1.55.0+dfsg-3 libboost-regex-dev_1.55.0.2 libboost-regex1.55-dev_1.55.0+dfsg-3 libboost-regex1.55.0_1.55.0+dfsg-3 libboost-system1.55-dev_1.55.0+dfsg-3 libboost-system1.55.0_1.55.0+dfsg-3 libboost1.55-dev_1.55.0+dfsg-3 libbz2-1.0_1.0.6-7 libc-bin_2.19-18 libc-dev-bin_2.19-18 libc6_2.19-18 libc6-dev_2.19-18 libcap2_1:2.24-8 libcap2-bin_1:2.24-8 libcloog-isl4_0.18.2-1 libcomerr2_1.42.12-1.1 libcr0_0.8.5-2.2 libcroco3_0.6.8-3 libcrypto++-dev_5.6.1-6 libcrypto++9_5.6.1-6 libcryptsetup4_2:1.6.6-5 libdb5.3_5.3.28-9 libdbus-1-3_1.8.16-1 libdebconfclient0_0.192 libdevmapper1.02.1_2:1.02.90-2.2 libdpkg-perl_1.17.25 libdrm2_2.4.58-2 libfakeroot_1.20.2-1 libffi6_3.1-2 libgc1c2_1:7.2d-6.4 libgcc-4.9-dev_4.9.2-10 libgcc1_1:4.9.2-10 libgcrypt20_1.6.3-2 libgdbm3_1.8.3-13.1 libgfortran3_5.1.1-9+rpi1 libglib2.0-0_2.44.1-1.1 libgmp10_2:6.0.0+dfsg-6+rpi1 libgomp1_4.9.2-10 libgpg-error0_1.17-3 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_52.1-9 libicu52_52.1-9 libisl10_0.12.2-2 libklibc_2.0.4-2+rpi1 libkmod2_18-3 liblocale-gettext-perl_1.05-8+b1 libltdl-dev_2.4.2-1.11 libltdl7_2.4.2-1.11 liblzma5_5.1.1alpha+20120614-2 libmagic1_1:5.22+15-2 libmount1_2.25.2-6 libmpc3_1.0.2-1 libmpfr4_3.1.2-2 libncurses5_5.9+20140913-1 libncursesw5_5.9+20140913-1 libnih-dbus1_1.0.3-4.3 libnih1_1.0.3-4.3 libopenmpi-dev_1.6.5-9.2+rpi1 libopenmpi1.6_1.6.5-9.2+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_2:8.35-3.3 libpipeline1_1.4.0-1 libpng12-0_1.2.50-2 libprocps3_2:3.3.9-9 libpstreams-dev_0.8.0-2 libreadline6_6.3-8 libselinux1_2.3-2 libsemanage-common_2.3-1 libsemanage1_2.3-1 libsepol1_2.3-2 libslang2_2.3.0-2 libsmartcols1_2.25.2-6 libss2_1.42.12-1.1 libstdc++-4.9-dev_4.9.2-10 libstdc++6_4.9.2-10 libsystemd0_215-17 libterm-readkey-perl_2.32-2 libtext-charwidth-perl_0.04-7+b4 libtext-iconv-perl_1.7-5+b5 libtext-wrapi18n-perl_0.06-7 libtext-wrapper-perl_1.05-1 libtimedate-perl_2.3000-2 libtinfo5_5.9+20140913-1 libubsan0_4.9.2-10 libudev1_215-17 libunistring0_0.9.3-5.2 libusb-0.1-4_2:0.1.12-25 libustr-1.0-1_1.0.4-3 libuuid1_2.25.2-6 libxml2_2.9.1+dfsg1-5 linux-libc-dev_3.16.7-ckt4-1+rpi1 login_1:4.2-3 lsb-base_4.1+Debian13+rpi1+nmu1 make_4.0-8.1 makedev_2.3.1-93 man-db_2.7.0.2-5 mawk_1.3.3-17 mount_2.25.2-6 mountall_2.54 multiarch-support_2.19-18 ncurses-base_5.9+20140913-1 ncurses-bin_5.9+20140913-1 openmpi-common_1.6.5-9.2+rpi1 passwd_1:4.2-3 patch_2.7.5-1 perl_5.20.2-3 perl-base_5.20.2-3 perl-modules_5.20.2-3 plymouth_0.9.0-9 po-debconf_1.0.18 procps_2:3.3.9-9 raspbian-archive-keyring_20120528.2 readline-common_6.3-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-murasaki-dummy_0.invalid.0 sed_4.2.2-4 sensible-utils_0.0.9 startpar_0.59-3 systemd_215-17 systemd-sysv_215-17 sysv-rc_2.88dsf-59 sysvinit-utils_2.88dsf-59 tar_1.27.1-2 tzdata_2015c-1 udev_215-17 util-linux_2.25.2-6 xz-utils_5.1.1alpha+20120614-2 zlib1g_1:1.2.8.dfsg-2
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
└──────────────────────────────────────────────────────────────────────────────┘
Unpack source
─────────────
gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Thu Jun 25 07:10:30 2015 UTC using RSA key ID D1C646D1
gpgv: Can't check signature: public key not found
dpkg-source: warning: failed to verify signature on ./murasaki_1.68.6-2.dsc
dpkg-source: info: extracting murasaki in murasaki-1.68.6
dpkg-source: info: unpacking murasaki_1.68.6.orig.tar.gz
dpkg-source: info: unpacking murasaki_1.68.6-2.debian.tar.xz
dpkg-source: info: applying use_proper_libboost_names.patch
dpkg-source: info: applying include_libpstream.patch
dpkg-source: info: applying hardening.patch
dpkg-source: info: applying spelling.patch
dpkg-source: info: applying man_syntax.patch
Check disc space
────────────────
Sufficient free space for build
User Environment
────────────────
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LOGNAME=root
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-b229d041-4f4a-4064-b19d-031524d62df6
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=xterm
USER=buildd
dpkg-buildpackage
─────────────────
dpkg-buildpackage: source package murasaki
dpkg-buildpackage: source version 1.68.6-2
dpkg-buildpackage: source distribution unstable
dpkg-source --before-build murasaki-1.68.6
dpkg-buildpackage: host architecture armhf
fakeroot debian/rules clean
dh clean
dh_testdir
dh_auto_clean
make -j1 clean
make[1]: Entering directory '/«PKGBUILDDIR»'
rm -rf *.o *~ .*~ core
make -C src clean
make[2]: Entering directory '/«PKGBUILDDIR»/src'
rm -rf *.o *~ .*~ core ../murasaki ../cgr-image ../cgr-compare ../cgr-random ../cgr-sample ../testeco ../align-compare ../align-or ../geneparse ../align-and ../align-best ../align-coverage ../getsegments ../mbfa
make[2]: Leaving directory '/«PKGBUILDDIR»/src'
make[1]: Leaving directory '/«PKGBUILDDIR»'
dh_clean
debian/rules build-arch
dh build-arch
dh_testdir -a
dh_auto_configure -a
debian/rules override_dh_auto_build
make[1]: Entering directory '/«PKGBUILDDIR»'
dh_auto_build -- USE_MPI=YES
make -j1 USE_MPI=YES
make[2]: Entering directory '/«PKGBUILDDIR»'
make -C src all
make[3]: Entering directory '/«PKGBUILDDIR»/src'
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c murasaki.cc
murasaki.cc: In function 'void procLocs(LocList&, std::list<Location>&, int, int)':
murasaki.cc:1008:8: warning: variable 'revZero' set but not used [-Wunused-but-set-variable]
bool revZero=false;
^
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c timing.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c dinkymath.cc
dinkymath.cc: In function 'std::string littleEndianStr(unsigned int, int)':
dinkymath.cc:40:7: warning: variable 'last' set but not used [-Wunused-but-set-variable]
int last=0;
^
dinkymath.cc: In function 'std::string littleEndianPat(unsigned int, int)':
dinkymath.cc:53:7: warning: variable 'last' set but not used [-Wunused-but-set-variable]
int last=0;
^
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c sequence.cc
sequence.cc: In member function 'std::pair<double, long int> IntervalSet::entropy() const':
sequence.cc:3330:10: warning: variable 'shortest' set but not used [-Wunused-but-set-variable]
SeqPos shortest=0,shortlen=length(spaces[0]);
^
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c msethash.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c options.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c ecohash.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c ecolist.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c murasaki_mpi.cc
murasaki_mpi.cc: In function 'void mpi_hasher_client_mode(BitSequence*)':
murasaki_mpi.cc:561:9: warning: variable 'send_done' set but not used [-Wunused-but-set-variable]
int send_done;
^
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c arrayhash.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c seqread.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c scoring.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c openhash.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c genopts.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c binseq.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../murasaki murasaki.o timing.o dinkymath.o sequence.o msethash.o options.o ecohash.o ecolist.o murasaki_mpi.o arrayhash.o seqread.o scoring.o openhash.o genopts.o binseq.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c cgr-image.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c cgr.cc
cgr.cc: In member function 'void Cgr::merge(Cgr&)':
cgr.cc:140:7: warning: variable 'redist' set but not used [-Wunused-but-set-variable]
int redist=(unsigned long)(rez*rez)<=seedcount;
^
cgr.cc: In member function 'bool Cgr::savePNG(std::string)':
cgr.cc:288:7: warning: variable 'res' set but not used [-Wunused-but-set-variable]
int res;
^
cgr.cc: In member function 'int PgmBuffer::loadPGM(std::string)':
cgr.cc:435:7: warning: variable 'wordwidth' set but not used [-Wunused-but-set-variable]
int wordwidth=1;
^
cgr.cc: In member function 'int PgmBuffer::loadBinaryPGM(std::string)':
cgr.cc:551:36: warning: 'maxval' may be used uninitialized in this function [-Wmaybe-uninitialized]
default: data.back()*=(maxout/maxval);break;//ugly, but it'll work
^
cgr.cc:557:31: warning: 'height' may be used uninitialized in this function [-Wmaybe-uninitialized]
if(data.size()<(uint)(height*width))
^
cgr.cc:557:31: warning: 'width' may be used uninitialized in this function [-Wmaybe-uninitialized]
cgr.cc: In member function 'int PgmBuffer::loadPGM(std::string)':
cgr.cc:485:31: warning: 'height' may be used uninitialized in this function [-Wmaybe-uninitialized]
if(data.size()<(uint)(height*width))
^
cgr.cc:485:31: warning: 'width' may be used uninitialized in this function [-Wmaybe-uninitialized]
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../cgr-image cgr-image.o cgr.o dinkymath.o timing.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c cgr-compare.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../cgr-compare cgr-compare.o cgr.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c cgr-random.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../cgr-random cgr-random.o cgr.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c cgr-sample.cc
cgr-sample.cc: In function 'int main(int, char**)':
cgr-sample.cc:54:8: warning: variable 'repeatmask' set but not used [-Wunused-but-set-variable]
bool repeatmask=false,save=false;
^
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../cgr-sample cgr.o cgr-sample.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c testeco.cc
testeco.cc:42:3: warning: this decimal constant is unsigned only in ISO C90
const long genomesize=3221225472;
^
testeco.cc: In function 'long int bigrand()':
testeco.cc:29:43: warning: left shift count >= width of type
return (long)(((unsigned long)(rand())<<32) + ((unsigned long)(rand())));
^
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../testeco testeco.o ecolist.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c align-compare.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c alignments.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../align-compare align-compare.o dinkymath.o alignments.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c align-or.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../align-or align-or.o alignments.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c geneparse.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../geneparse geneparse.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c align-and.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../align-and align-and.o alignments.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c align-best.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../align-best align-best.o alignments.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c align-coverage.cc
align-coverage.cc: In function 'int main(int, char**)':
align-coverage.cc:148:10: warning: variable 'seqStats' set but not used [-Wunused-but-set-variable]
bool seqStats=true;
^
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../align-coverage align-coverage.o alignments.o dinkymath.o timing.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c getsegments.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../getsegments getsegments.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c mbfa.cc
mpicxx -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DMURASAKI_MPI -DUSE_SHM_SYSV -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../mbfa mbfa.o dinkymath.o timing.o seqread.o binseq.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
make[3]: Leaving directory '/«PKGBUILDDIR»/src'
make[2]: Leaving directory '/«PKGBUILDDIR»'
for bin in geneparse mbfa murasaki cgr-* testeco align-* ; do \
mv ${bin} ${bin}-mpi ; \
done
make clean
make[2]: Entering directory '/«PKGBUILDDIR»'
rm -rf *.o *~ .*~ core
make -C src clean
make[3]: Entering directory '/«PKGBUILDDIR»/src'
rm -rf *.o *~ .*~ core ../murasaki ../cgr-image ../cgr-compare ../cgr-random ../cgr-sample ../testeco ../align-compare ../align-or ../geneparse ../align-and ../align-best ../align-coverage ../getsegments ../mbfa
make[3]: Leaving directory '/«PKGBUILDDIR»/src'
make[2]: Leaving directory '/«PKGBUILDDIR»'
dh_auto_build -- USE_MPI=NO
make -j1 USE_MPI=NO
make[2]: Entering directory '/«PKGBUILDDIR»'
make -C src all
make[3]: Entering directory '/«PKGBUILDDIR»/src'
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c murasaki.cc
murasaki.cc: In function 'void procLocs(LocList&, std::list<Location>&, int, int)':
murasaki.cc:1008:8: warning: variable 'revZero' set but not used [-Wunused-but-set-variable]
bool revZero=false;
^
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c timing.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c dinkymath.cc
dinkymath.cc: In function 'std::string littleEndianStr(unsigned int, int)':
dinkymath.cc:40:7: warning: variable 'last' set but not used [-Wunused-but-set-variable]
int last=0;
^
dinkymath.cc: In function 'std::string littleEndianPat(unsigned int, int)':
dinkymath.cc:53:7: warning: variable 'last' set but not used [-Wunused-but-set-variable]
int last=0;
^
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c sequence.cc
sequence.cc: In member function 'std::pair<double, long int> IntervalSet::entropy() const':
sequence.cc:3330:10: warning: variable 'shortest' set but not used [-Wunused-but-set-variable]
SeqPos shortest=0,shortlen=length(spaces[0]);
^
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c msethash.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c options.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c ecohash.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c ecolist.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c murasaki_mpi.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c arrayhash.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c seqread.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c scoring.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c openhash.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c genopts.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c binseq.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../murasaki murasaki.o timing.o dinkymath.o sequence.o msethash.o options.o ecohash.o ecolist.o murasaki_mpi.o arrayhash.o seqread.o scoring.o openhash.o genopts.o binseq.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c cgr-image.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c cgr.cc
cgr.cc: In member function 'void Cgr::merge(Cgr&)':
cgr.cc:140:7: warning: variable 'redist' set but not used [-Wunused-but-set-variable]
int redist=(unsigned long)(rez*rez)<=seedcount;
^
cgr.cc: In member function 'bool Cgr::savePNG(std::string)':
cgr.cc:288:7: warning: variable 'res' set but not used [-Wunused-but-set-variable]
int res;
^
cgr.cc: In member function 'int PgmBuffer::loadPGM(std::string)':
cgr.cc:435:7: warning: variable 'wordwidth' set but not used [-Wunused-but-set-variable]
int wordwidth=1;
^
cgr.cc: In member function 'int PgmBuffer::loadBinaryPGM(std::string)':
cgr.cc:551:36: warning: 'maxval' may be used uninitialized in this function [-Wmaybe-uninitialized]
default: data.back()*=(maxout/maxval);break;//ugly, but it'll work
^
cgr.cc:557:31: warning: 'height' may be used uninitialized in this function [-Wmaybe-uninitialized]
if(data.size()<(uint)(height*width))
^
cgr.cc:557:31: warning: 'width' may be used uninitialized in this function [-Wmaybe-uninitialized]
cgr.cc: In member function 'int PgmBuffer::loadPGM(std::string)':
cgr.cc:485:31: warning: 'height' may be used uninitialized in this function [-Wmaybe-uninitialized]
if(data.size()<(uint)(height*width))
^
cgr.cc:485:31: warning: 'width' may be used uninitialized in this function [-Wmaybe-uninitialized]
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../cgr-image cgr-image.o cgr.o dinkymath.o timing.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c cgr-compare.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../cgr-compare cgr-compare.o cgr.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c cgr-random.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../cgr-random cgr-random.o cgr.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c cgr-sample.cc
cgr-sample.cc: In function 'int main(int, char**)':
cgr-sample.cc:54:8: warning: variable 'repeatmask' set but not used [-Wunused-but-set-variable]
bool repeatmask=false,save=false;
^
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../cgr-sample cgr.o cgr-sample.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c testeco.cc
testeco.cc:42:3: warning: this decimal constant is unsigned only in ISO C90
const long genomesize=3221225472;
^
testeco.cc: In function 'long int bigrand()':
testeco.cc:29:43: warning: left shift count >= width of type
return (long)(((unsigned long)(rand())<<32) + ((unsigned long)(rand())));
^
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../testeco testeco.o ecolist.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c align-compare.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c alignments.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../align-compare align-compare.o dinkymath.o alignments.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c align-or.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../align-or align-or.o alignments.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c geneparse.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../geneparse geneparse.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c align-and.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../align-and align-and.o alignments.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c align-best.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../align-best align-best.o alignments.o dinkymath.o timing.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c align-coverage.cc
align-coverage.cc: In function 'int main(int, char**)':
align-coverage.cc:148:10: warning: variable 'seqStats' set but not used [-Wunused-but-set-variable]
bool seqStats=true;
^
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../align-coverage align-coverage.o alignments.o dinkymath.o timing.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c getsegments.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../getsegments getsegments.o seqread.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c mbfa.cc
g++ -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -o ../mbfa mbfa.o dinkymath.o timing.o seqread.o binseq.o genopts.o -lboost_regex -lboost_filesystem -lboost_iostreams -lboost_system -Wl,-z,relro -lcryptopp -pthread
make[3]: Leaving directory '/«PKGBUILDDIR»/src'
make[2]: Leaving directory '/«PKGBUILDDIR»'
make[1]: Leaving directory '/«PKGBUILDDIR»'
dh_auto_test -a
fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
dh_auto_install -a
debian/rules override_dh_install
make[1]: Entering directory '/«PKGBUILDDIR»'
dh_install
# using wildcards in install files is practical but it duplicates some files
find debian/murasaki/usr -name "*-mpi" -delete
make[1]: Leaving directory '/«PKGBUILDDIR»'
dh_installdocs -a
dh_installchangelogs -a
dh_installman -a
dh_perl -a
debian/rules override_dh_link
make[1]: Entering directory '/«PKGBUILDDIR»'
dh_link
mkdir -p debian/murasaki-mpi/usr/share/man/man1
for man in debian/murasaki/usr/share/man/man1/* ; do \
ln -s `basename ${man}`.gz debian/murasaki-mpi/usr/share/man/man1/`basename ${man} .1`-mpi.1.gz ; \
done
make[1]: Leaving directory '/«PKGBUILDDIR»'
dh_compress -a
dh_fixperms -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: debian/murasaki/usr/lib/murasaki/cgr-random contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/lib/murasaki/cgr-sample contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/lib/murasaki/align-and contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/lib/murasaki/align-or contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/bin/murasaki contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/lib/murasaki/align-coverage contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/lib/murasaki/align-best contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/lib/murasaki/cgr-image contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/lib/murasaki/cgr-compare contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/bin/geneparse contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/lib/murasaki/testeco contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/lib/murasaki/align-compare contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki/usr/bin/mbfa contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/bin/murasaki-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/lib/murasaki/testeco-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/lib/murasaki/cgr-random-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/lib/murasaki/cgr-image-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/bin/geneparse-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/lib/murasaki/align-coverage-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/bin/mbfa-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/lib/murasaki/align-best-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/lib/murasaki/cgr-sample-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/lib/murasaki/align-or-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/lib/murasaki/align-compare-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/lib/murasaki/cgr-compare-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/murasaki-mpi/usr/lib/murasaki/align-and-mpi 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/murasaki-mpi/usr/bin/murasaki-mpi debian/murasaki-mpi/usr/lib/murasaki/testeco-mpi debian/murasaki-mpi/usr/lib/murasaki/cgr-random-mpi debian/murasaki-mpi/usr/lib/murasaki/cgr-image-mpi debian/murasaki-mpi/usr/bin/geneparse-mpi debian/murasaki-mpi/usr/lib/murasaki/align-coverage-mpi debian/murasaki-mpi/usr/bin/mbfa-mpi debian/murasaki-mpi/usr/lib/murasaki/align-best-mpi debian/murasaki-mpi/usr/lib/murasaki/cgr-sample-mpi debian/murasaki-mpi/usr/lib/murasaki/align-or-mpi debian/murasaki-mpi/usr/lib/murasaki/align-compare-mpi debian/murasaki-mpi/usr/lib/murasaki/cgr-compare-mpi debian/murasaki-mpi/usr/lib/murasaki/align-and-mpi were not linked against libmpi_cxx.so.1 (they use none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/murasaki-mpi/usr/bin/murasaki-mpi debian/murasaki-mpi/usr/lib/murasaki/testeco-mpi debian/murasaki-mpi/usr/lib/murasaki/cgr-random-mpi debian/murasaki-mpi/usr/lib/murasaki/cgr-image-mpi debian/murasaki-mpi/usr/bin/geneparse-mpi debian/murasaki-mpi/usr/lib/murasaki/align-coverage-mpi debian/murasaki-mpi/usr/bin/mbfa-mpi debian/murasaki-mpi/usr/lib/murasaki/align-best-mpi debian/murasaki-mpi/usr/lib/murasaki/cgr-sample-mpi debian/murasaki-mpi/usr/lib/murasaki/align-or-mpi debian/murasaki-mpi/usr/lib/murasaki/align-compare-mpi debian/murasaki-mpi/usr/lib/murasaki/cgr-compare-mpi debian/murasaki-mpi/usr/lib/murasaki/align-and-mpi were not linked against libdl.so.2 (they use none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/murasaki-mpi/usr/bin/murasaki-mpi debian/murasaki-mpi/usr/lib/murasaki/testeco-mpi debian/murasaki-mpi/usr/lib/murasaki/cgr-random-mpi debian/murasaki-mpi/usr/lib/murasaki/cgr-image-mpi debian/murasaki-mpi/usr/bin/geneparse-mpi debian/murasaki-mpi/usr/lib/murasaki/align-coverage-mpi debian/murasaki-mpi/usr/bin/mbfa-mpi debian/murasaki-mpi/usr/lib/murasaki/align-best-mpi debian/murasaki-mpi/usr/lib/murasaki/cgr-sample-mpi debian/murasaki-mpi/usr/lib/murasaki/align-or-mpi debian/murasaki-mpi/usr/lib/murasaki/align-compare-mpi debian/murasaki-mpi/usr/lib/murasaki/cgr-compare-mpi debian/murasaki-mpi/usr/lib/murasaki/align-and-mpi were not linked against libhwloc.so.5 (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
dpkg-gencontrol: warning: package murasaki-mpi: unused substitution variable ${perl:Depends}
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package `murasaki-mpi' in `../murasaki-mpi_1.68.6-2_armhf.deb'.
dpkg-deb: building package `murasaki' in `../murasaki_1.68.6-2_armhf.deb'.
dpkg-genchanges -B -mRaspbian wandboard test autobuilder <root@raspbian.org> >../murasaki_1.68.6-2_armhf.changes
dpkg-genchanges: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build murasaki-1.68.6
dpkg-buildpackage: binary-only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
Build finished at 20150630-1504
Finished
────────
I: Built successfully
┌──────────────────────────────────────────────────────────────────────────────┐
│ Post Build Chroot │
└──────────────────────────────────────────────────────────────────────────────┘
┌──────────────────────────────────────────────────────────────────────────────┐
│ Changes │
└──────────────────────────────────────────────────────────────────────────────┘
murasaki_1.68.6-2_armhf.changes:
────────────────────────────────
Format: 1.8
Date: Thu, 25 Jun 2015 08:56:17 +0200
Source: murasaki
Binary: murasaki murasaki-mpi murasaki-common
Architecture: armhf
Version: 1.68.6-2
Distribution: stretch-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
murasaki - homology detection tool across multiple large genomes
murasaki-common - homology detection tool across multiple large genomes (common fil
murasaki-mpi - homology detection tool across multiple large genomes (MPI-versio
Closes: 789827 789880
Changes:
murasaki (1.68.6-2) unstable; urgency=medium
.
* Do not try to access dirs from arch all package when doing arch any
only builds
Closes: #789827, #789880
* Small DEP5 format fix
Checksums-Sha1:
4c16d37a1d601fee9680fe7c6ed583d44c4597e4 363028 murasaki_1.68.6-2_armhf.deb
dcd7198ffd600643f72fe985d084d438f6d599cd 381662 murasaki-mpi_1.68.6-2_armhf.deb
Checksums-Sha256:
a31a3745e1d85cf47d88d5bddec609ec6cc5f03075d2fd6c3bc786012a40c56f 363028 murasaki_1.68.6-2_armhf.deb
95ed2392768001a159845933435702ef0efc1ea579858c79866e117f282b4488 381662 murasaki-mpi_1.68.6-2_armhf.deb
Files:
3256a0164594343c73ba437f9826f842 363028 science optional murasaki_1.68.6-2_armhf.deb
41093995a50e42738cfad3a2e21e7844 381662 science optional murasaki-mpi_1.68.6-2_armhf.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
murasaki_1.68.6-2_armhf.deb
───────────────────────────
new debian package, version 2.0.
size 363028 bytes: control archive=1479 bytes.
1160 bytes, 23 lines control
1184 bytes, 19 lines md5sums
Package: murasaki
Version: 1.68.6-2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 2356
Depends: murasaki-common, libboost-filesystem1.55.0, libboost-iostreams1.55.0, libboost-regex1.55.0, libboost-system1.55.0, libc6 (>= 2.4), libcrypto++9, libgcc1 (>= 1:4.4.0), libstdc++6 (>= 4.9)
Section: science
Priority: optional
Homepage: http://murasaki.dna.bio.keio.ac.jp/wiki/
Description: homology detection tool across multiple large genomes
Murasaki is a scalable and fast, language theory-based homology
detection tool across multiple large genomes. It enable whole-genome
scale multiple genome global alignments. Supports unlimited length
gapped-seed patterns and unique TF-IDF based filtering.
.
Murasaki is an anchor alignment software, which is
* exteremely fast (17 CPU hours for whole Human x Mouse genome (with
40 nodes: 52 wall minutes))
* scalable (Arbitrarily parallelizable across multiple nodes using MPI.
Even a single node with 16GB of ram can handle over 1Gbp of sequence.)
* unlimited pattern length
* repeat tolerant
* intelligent noise reduction
drwxr-xr-x root/root 0 2015-06-30 15:02 ./
drwxr-xr-x root/root 0 2015-06-30 15:02 ./usr/
drwxr-xr-x root/root 0 2015-06-30 15:02 ./usr/bin/
-rwxr-xr-x root/root 182464 2015-06-30 15:02 ./usr/bin/geneparse
-rwxr-xr-x root/root 215284 2015-06-30 15:02 ./usr/bin/mbfa
-rwxr-xr-x root/root 507552 2015-06-30 15:02 ./usr/bin/murasaki
drwxr-xr-x root/root 0 2015-06-30 15:02 ./usr/lib/
drwxr-xr-x root/root 0 2015-06-30 15:02 ./usr/lib/murasaki/
-rwxr-xr-x root/root 145340 2015-06-30 15:02 ./usr/lib/murasaki/align-and
-rwxr-xr-x root/root 153560 2015-06-30 15:02 ./usr/lib/murasaki/align-best
-rwxr-xr-x root/root 161780 2015-06-30 15:02 ./usr/lib/murasaki/align-compare
-rwxr-xr-x root/root 231636 2015-06-30 15:02 ./usr/lib/murasaki/align-coverage
-rwxr-xr-x root/root 141228 2015-06-30 15:02 ./usr/lib/murasaki/align-or
-rwxr-xr-x root/root 75632 2015-06-30 15:02 ./usr/lib/murasaki/cgr-compare
-rwxr-xr-x root/root 227604 2015-06-30 15:02 ./usr/lib/murasaki/cgr-image
-rwxr-xr-x root/root 79828 2015-06-30 15:02 ./usr/lib/murasaki/cgr-random
-rwxr-xr-x root/root 223464 2015-06-30 15:02 ./usr/lib/murasaki/cgr-sample
-rwxr-xr-x root/root 46764 2015-06-30 15:02 ./usr/lib/murasaki/testeco
drwxr-xr-x root/root 0 2015-06-30 15:02 ./usr/share/
drwxr-xr-x root/root 0 2015-06-30 15:02 ./usr/share/doc/
drwxr-xr-x root/root 0 2015-06-30 15:02 ./usr/share/doc/murasaki/
-rw-r--r-- root/root 323 2015-04-15 13:44 ./usr/share/doc/murasaki/README.Debian
-rw-r--r-- root/root 345 2015-06-25 07:06 ./usr/share/doc/murasaki/changelog.Debian.gz
-rw-r--r-- root/root 2230 2015-06-25 07:06 ./usr/share/doc/murasaki/copyright
drwxr-xr-x root/root 0 2015-06-30 15:02 ./usr/share/man/
drwxr-xr-x root/root 0 2015-06-30 15:02 ./usr/share/man/man1/
-rw-r--r-- root/root 2518 2015-06-30 15:02 ./usr/share/man/man1/geneparse.1.gz
-rw-r--r-- root/root 2721 2015-06-30 15:02 ./usr/share/man/man1/mbfa.1.gz
-rw-r--r-- root/root 10888 2015-06-30 15:02 ./usr/share/man/man1/murasaki.1.gz
murasaki-mpi_1.68.6-2_armhf.deb
───────────────────────────────
new debian package, version 2.0.
size 381662 bytes: control archive=1518 bytes.
1403 bytes, 28 lines control
1043 bytes, 16 lines md5sums
Package: murasaki-mpi
Source: murasaki
Version: 1.68.6-2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 2435
Depends: murasaki-common, libboost-filesystem1.55.0, libboost-iostreams1.55.0, libboost-regex1.55.0, libboost-system1.55.0, libc6 (>= 2.4), libcrypto++9, libgcc1 (>= 1:4.4.0), libhwloc5 (>= 1.11.0), libopenmpi1.6, libstdc++6 (>= 4.9)
Section: science
Priority: optional
Homepage: http://murasaki.dna.bio.keio.ac.jp/wiki/
Description: homology detection tool across multiple large genomes (MPI-version)
Murasaki is a scalable and fast, language theory-based homology
detection tool across multiple large genomes. It enable whole-genome
scale multiple genome global alignments. Supports unlimited length
gapped-seed patterns and unique TF-IDF based filtering.
.
Murasaki is an anchor alignment software, which is
* exteremely fast (17 CPU hours for whole Human x Mouse genome (with
40 nodes: 52 wall minutes))
* scalable (Arbitrarily parallelizable across multiple nodes using MPI.
Even a single node with 16GB of ram can handle over 1Gbp of sequence.)
* unlimited pattern length
* repeat tolerant
* intelligent noise reduction
.
This package provides the MPI-enabled binary for murasaki. While this
will speed up operation on multi-processor machines it will slow down
on a single processor.
drwxr-xr-x root/root 0 2015-06-30 15:03 ./
drwxr-xr-x root/root 0 2015-06-30 15:02 ./usr/
drwxr-xr-x root/root 0 2015-06-30 15:02 ./usr/bin/
-rwxr-xr-x root/root 182464 2015-06-30 15:02 ./usr/bin/geneparse-mpi
-rwxr-xr-x root/root 215284 2015-06-30 15:02 ./usr/bin/mbfa-mpi
-rwxr-xr-x root/root 597784 2015-06-30 15:02 ./usr/bin/murasaki-mpi
drwxr-xr-x root/root 0 2015-06-30 15:02 ./usr/lib/
drwxr-xr-x root/root 0 2015-06-30 15:02 ./usr/lib/murasaki/
-rwxr-xr-x root/root 145340 2015-06-30 15:02 ./usr/lib/murasaki/align-and-mpi
-rwxr-xr-x root/root 153560 2015-06-30 15:02 ./usr/lib/murasaki/align-best-mpi
-rwxr-xr-x root/root 161780 2015-06-30 15:02 ./usr/lib/murasaki/align-compare-mpi
-rwxr-xr-x root/root 231636 2015-06-30 15:02 ./usr/lib/murasaki/align-coverage-mpi
-rwxr-xr-x root/root 141228 2015-06-30 15:02 ./usr/lib/murasaki/align-or-mpi
-rwxr-xr-x root/root 75632 2015-06-30 15:02 ./usr/lib/murasaki/cgr-compare-mpi
-rwxr-xr-x root/root 227604 2015-06-30 15:02 ./usr/lib/murasaki/cgr-image-mpi
-rwxr-xr-x root/root 7138 2010-08-24 14:18 ./usr/lib/murasaki/cgr-image.pl-mpi
-rwxr-xr-x root/root 79828 2015-06-30 15:02 ./usr/lib/murasaki/cgr-random-mpi
-rwxr-xr-x root/root 223464 2015-06-30 15:02 ./usr/lib/murasaki/cgr-sample-mpi
-rwxr-xr-x root/root 46764 2015-06-30 15:02 ./usr/lib/murasaki/testeco-mpi
drwxr-xr-x root/root 0 2015-06-30 15:02 ./usr/share/
drwxr-xr-x root/root 0 2015-06-30 15:02 ./usr/share/doc/
drwxr-xr-x root/root 0 2015-06-30 15:02 ./usr/share/doc/murasaki-mpi/
-rw-r--r-- root/root 345 2015-06-25 07:06 ./usr/share/doc/murasaki-mpi/changelog.Debian.gz
-rw-r--r-- root/root 2230 2015-06-25 07:06 ./usr/share/doc/murasaki-mpi/copyright
drwxr-xr-x root/root 0 2015-06-30 15:02 ./usr/share/man/
drwxr-xr-x root/root 0 2015-06-30 15:02 ./usr/share/man/man1/
lrwxrwxrwx root/root 0 2015-06-30 15:02 ./usr/share/man/man1/geneparse-mpi.1.gz -> geneparse.1.gz
lrwxrwxrwx root/root 0 2015-06-30 15:02 ./usr/share/man/man1/mbfa-mpi.1.gz -> mbfa.1.gz
lrwxrwxrwx root/root 0 2015-06-30 15:02 ./usr/share/man/man1/murasaki-mpi.1.gz -> murasaki.1.gz
┌──────────────────────────────────────────────────────────────────────────────┐
│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
┌──────────────────────────────────────────────────────────────────────────────┐
│ Cleanup │
└──────────────────────────────────────────────────────────────────────────────┘
Purging /«BUILDDIR»
Not cleaning session: cloned chroot in use
┌──────────────────────────────────────────────────────────────────────────────┐
│ Summary │
└──────────────────────────────────────────────────────────────────────────────┘
Build Architecture: armhf
Build-Space: 93480
Build-Time: 1959
Distribution: stretch-staging
Host Architecture: armhf
Install-Time: 308
Job: murasaki_1.68.6-2
Machine Architecture: armhf
Package: murasaki
Package-Time: 2328
Source-Version: 1.68.6-2
Space: 93480
Status: successful
Version: 1.68.6-2
────────────────────────────────────────────────────────────────────────────────
Finished at 20150630-1504
Build needed 00:38:48, 93480k disc space