murasaki →
1.68.6-4+b5 →
armhf → 2016-03-10 05:39:23
sbuild (Debian sbuild) 0.68.0 (15 Jan 2016) on bm-wb-01
+==============================================================================+
| murasaki 1.68.6-4+b5 (armhf) 10 Mar 2016 04:58 |
+==============================================================================+
Package: murasaki
Version: 1.68.6-4+b5
Source Version: 1.68.6-4
Distribution: stretch-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'build/murasaki-nS_UA_/murasaki-1.68.6' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/murasaki-nS_UA_' with '<<BUILDDIR>>'
I: NOTICE: Log filtering will replace 'var/run/schroot/mount/stretch-staging-armhf-sbuild-03d60c97-e333-4adb-92a9-7ea86ba35870' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private stretch-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private stretch-staging/main Sources [8789 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf Packages [10.9 MB]
Fetched 19.7 MB in 21s (903 kB/s)
Reading package lists...
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
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 1.68.6-4 (dsc) [2244 B]
Get:2 http://172.17.0.1/private stretch-staging/main murasaki 1.68.6-4 (tar) [308 kB]
Get:3 http://172.17.0.1/private stretch-staging/main murasaki 1.68.6-4 (diff) [6276 B]
Fetched 316 kB in 0s (3868 kB/s)
Download complete and in download only mode
+------------------------------------------------------------------------------+
| Install build-essential |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-chKZ5Y/apt_archive/sbuild-build-depends-core-dummy.deb'.
OK
Get:1 file:/<<BUILDDIR>>/resolver-chKZ5Y/apt_archive ./ InRelease
Ign:1 file:/<<BUILDDIR>>/resolver-chKZ5Y/apt_archive ./ InRelease
Get:2 file:/<<BUILDDIR>>/resolver-chKZ5Y/apt_archive ./ Release [2119 B]
Get:2 file:/<<BUILDDIR>>/resolver-chKZ5Y/apt_archive ./ Release [2119 B]
Get:3 file:/<<BUILDDIR>>/resolver-chKZ5Y/apt_archive ./ Release.gpg [299 B]
Get:3 file:/<<BUILDDIR>>/resolver-chKZ5Y/apt_archive ./ Release.gpg [299 B]
Get:4 file:/<<BUILDDIR>>/resolver-chKZ5Y/apt_archive ./ Sources [214 B]
Get:5 file:/<<BUILDDIR>>/resolver-chKZ5Y/apt_archive ./ Packages [528 B]
Ign:4 file:/<<BUILDDIR>>/resolver-chKZ5Y/apt_archive ./ Sources
Ign:5 file:/<<BUILDDIR>>/resolver-chKZ5Y/apt_archive ./ Packages
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Get:5 file:/<<BUILDDIR>>/resolver-chKZ5Y/apt_archive ./ Packages [528 B]
Reading package lists...
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Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following package was automatically installed and is no longer required:
manpages
Use 'apt autoremove' to remove it.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 71 not upgraded.
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Get:1 file:/<<BUILDDIR>>/resolver-chKZ5Y/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [768 B]
debconf: delaying package configuration, since apt-utils is not installed
Selecting previously unselected package sbuild-build-depends-core-dummy.
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+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any all)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: 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: 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-OlNKiS/apt_archive/sbuild-build-depends-murasaki-dummy.deb'.
OK
Get:1 file:/<<BUILDDIR>>/resolver-OlNKiS/apt_archive ./ InRelease
Ign:1 file:/<<BUILDDIR>>/resolver-OlNKiS/apt_archive ./ InRelease
Get:2 file:/<<BUILDDIR>>/resolver-OlNKiS/apt_archive ./ Release [2119 B]
Get:2 file:/<<BUILDDIR>>/resolver-OlNKiS/apt_archive ./ Release [2119 B]
Get:3 file:/<<BUILDDIR>>/resolver-OlNKiS/apt_archive ./ Release.gpg [299 B]
Get:3 file:/<<BUILDDIR>>/resolver-OlNKiS/apt_archive ./ Release.gpg [299 B]
Get:4 file:/<<BUILDDIR>>/resolver-OlNKiS/apt_archive ./ Sources [278 B]
Get:5 file:/<<BUILDDIR>>/resolver-OlNKiS/apt_archive ./ Packages [598 B]
Ign:4 file:/<<BUILDDIR>>/resolver-OlNKiS/apt_archive ./ Sources
Ign:5 file:/<<BUILDDIR>>/resolver-OlNKiS/apt_archive ./ Packages
Get:4 file:/<<BUILDDIR>>/resolver-OlNKiS/apt_archive ./ Sources [278 B]
Get:5 file:/<<BUILDDIR>>/resolver-OlNKiS/apt_archive ./ Packages [598 B]
Reading package lists...
Reading package lists...
Install murasaki build dependencies (apt-based resolver)
--------------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following package was automatically installed and is no longer required:
manpages
Use 'apt autoremove' to remove it.
The following additional packages will be installed:
autotools-dev bsdmainutils cpp-5 debhelper dh-strip-nondeterminism file
g++-5 gcc-5 gcc-5-base gettext gettext-base groff-base icu-devtools
intltool-debian libarchive-zip-perl libasan2 libatomic1
libboost-filesystem-dev libboost-filesystem1.58-dev
libboost-filesystem1.58.0 libboost-iostreams-dev libboost-iostreams1.58-dev
libboost-iostreams1.58.0 libboost-regex-dev libboost-regex1.58-dev
libboost-regex1.58.0 libboost-system1.58-dev libboost-system1.58.0
libboost1.58-dev libcc1-0 libcroco3 libcrypto++-dev libcrypto++9v5 libffi6
libfile-stripnondeterminism-perl libgcc-5-dev libgcc1 libgfortran3
libglib2.0-0 libgomp1 libhwloc-dev libhwloc5 libibverbs-dev libibverbs1
libicu-dev libicu55 libltdl-dev libltdl7 libmagic1 libopenmpi-dev
libopenmpi1.10 libpipeline1 libpstreams-dev libstdc++-5-dev libstdc++6
libterm-readkey-perl libtext-wrapper-perl libtimedate-perl libubsan0
libunistring0 libxml2 man-db openmpi-common po-debconf
Suggested packages:
wamerican | wordlist whois vacation gcc-5-locales dh-make gcc-5-doc
libstdc++6-5-dbg libgcc1-dbg libgomp1-dbg libitm1-dbg libatomic1-dbg
libasan2-dbg liblsan0-dbg libtsan0-dbg libubsan0-dbg libcilkrts5-dbg
libmpx0-dbg libquadmath0-dbg gettext-doc autopoint libasprintf-dev
libgettextpo-dev groff libboost1.58-doc libboost-atomic1.58-dev
libboost-chrono1.58-dev libboost-context1.58-dev libboost-coroutine1.58-dev
libboost-date-time1.58-dev libboost-exception1.58-dev libboost-graph1.58-dev
libboost-graph-parallel1.58-dev libboost-locale1.58-dev libboost-log1.58-dev
libboost-math1.58-dev libboost-mpi1.58-dev libboost-mpi-python1.58-dev
libboost-program-options1.58-dev libboost-python1.58-dev
libboost-random1.58-dev libboost-serialization1.58-dev
libboost-signals1.58-dev libboost-test1.58-dev libboost-thread1.58-dev
libboost-timer1.58-dev libboost-wave1.58-dev libboost1.58-tools-dev
libmpfrc++-dev libntl-dev libhwloc-contrib-plugins icu-doc libtool-doc
opennmpi-doc libstdc++-5-doc less www-browser libmail-box-perl
Recommended packages:
curl | wget | lynx-cur libglib2.0-data shared-mime-info xdg-user-dirs
libhwloc-plugins libtool openmpi-bin xml-core libmail-sendmail-perl
The following NEW packages will be installed:
autotools-dev bsdmainutils debhelper dh-strip-nondeterminism file gettext
gettext-base groff-base icu-devtools intltool-debian libarchive-zip-perl
libboost-filesystem-dev libboost-filesystem1.58-dev
libboost-filesystem1.58.0 libboost-iostreams-dev libboost-iostreams1.58-dev
libboost-iostreams1.58.0 libboost-regex-dev libboost-regex1.58-dev
libboost-regex1.58.0 libboost-system1.58-dev libboost-system1.58.0
libboost1.58-dev libcroco3 libcrypto++-dev libcrypto++9v5 libffi6
libfile-stripnondeterminism-perl libgfortran3 libglib2.0-0 libhwloc-dev
libhwloc5 libibverbs-dev libibverbs1 libicu-dev libicu55 libltdl-dev
libltdl7 libmagic1 libopenmpi-dev libopenmpi1.10 libpipeline1
libpstreams-dev libterm-readkey-perl libtext-wrapper-perl libtimedate-perl
libunistring0 libxml2 man-db openmpi-common po-debconf
sbuild-build-depends-murasaki-dummy
The following packages will be upgraded:
cpp-5 g++-5 gcc-5 gcc-5-base libasan2 libatomic1 libcc1-0 libgcc-5-dev
libgcc1 libgomp1 libstdc++-5-dev libstdc++6 libubsan0
13 upgraded, 52 newly installed, 0 to remove and 58 not upgraded.
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Get:2 http://172.17.0.1/private stretch-staging/main armhf libgomp1 armhf 5.3.1-10 [47.2 kB]
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Get:16 http://172.17.0.1/private stretch-staging/main armhf bsdmainutils armhf 9.0.6 [177 kB]
Get:17 http://172.17.0.1/private stretch-staging/main armhf libpipeline1 armhf 1.4.1-2 [23.7 kB]
Get:18 http://172.17.0.1/private stretch-staging/main armhf man-db armhf 2.7.5-1 [975 kB]
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Get:22 http://172.17.0.1/private stretch-staging/main armhf file armhf 1:5.25-2 [61.2 kB]
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Get:24 http://172.17.0.1/private stretch-staging/main armhf libicu55 armhf 55.1-7 [7380 kB]
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Get:26 http://172.17.0.1/private stretch-staging/main armhf autotools-dev all 20150820.1 [71.7 kB]
Get:27 http://172.17.0.1/private stretch-staging/main armhf libffi6 armhf 3.2.1-4 [18.5 kB]
Get:28 http://172.17.0.1/private stretch-staging/main armhf libglib2.0-0 armhf 2.46.2-3 [2482 kB]
Get:29 http://172.17.0.1/private stretch-staging/main armhf libcroco3 armhf 0.6.11-1 [131 kB]
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Get:31 http://172.17.0.1/private stretch-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:32 http://172.17.0.1/private stretch-staging/main armhf po-debconf all 1.0.19 [249 kB]
Get:33 http://172.17.0.1/private stretch-staging/main armhf libarchive-zip-perl all 1.56-2 [94.9 kB]
Get:34 http://172.17.0.1/private stretch-staging/main armhf libfile-stripnondeterminism-perl all 0.016-1 [11.9 kB]
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Get:36 http://172.17.0.1/private stretch-staging/main armhf dh-strip-nondeterminism all 0.016-1 [6998 B]
Get:37 http://172.17.0.1/private stretch-staging/main armhf debhelper all 9.20160115 [827 kB]
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Get:39 http://172.17.0.1/private stretch-staging/main armhf libboost1.58-dev armhf 1.58.0+dfsg-5+b1 [6232 kB]
Get:40 http://172.17.0.1/private stretch-staging/main armhf libboost-system1.58.0 armhf 1.58.0+dfsg-5+b1 [30.8 kB]
Get:41 http://172.17.0.1/private stretch-staging/main armhf libboost-filesystem1.58.0 armhf 1.58.0+dfsg-5+b1 [57.3 kB]
Get:42 http://172.17.0.1/private stretch-staging/main armhf libboost-system1.58-dev armhf 1.58.0+dfsg-5+b1 [31.8 kB]
Get:43 http://172.17.0.1/private stretch-staging/main armhf libboost-filesystem1.58-dev armhf 1.58.0+dfsg-5+b1 [66.2 kB]
Get:44 http://172.17.0.1/private stretch-staging/main armhf libboost-filesystem-dev armhf 1.58.0.1+b1 [3428 B]
Get:45 http://172.17.0.1/private stretch-staging/main armhf libboost-regex1.58.0 armhf 1.58.0+dfsg-5+b1 [226 kB]
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Get:49 http://172.17.0.1/private stretch-staging/main armhf libboost-iostreams-dev armhf 1.58.0.1+b1 [3388 B]
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Get:51 http://172.17.0.1/private stretch-staging/main armhf libcrypto++9v5 armhf 5.6.1-9 [783 kB]
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Get:53 http://172.17.0.1/private stretch-staging/main armhf libgfortran3 armhf 5.3.1-10 [153 kB]
Get:54 http://172.17.0.1/private stretch-staging/main armhf libltdl7 armhf 2.4.6-0.1 [42.8 kB]
Get:55 http://172.17.0.1/private stretch-staging/main armhf libltdl-dev armhf 2.4.6-0.1 [159 kB]
Get:56 http://172.17.0.1/private stretch-staging/main armhf libpstreams-dev all 0.8.0-2 [125 kB]
Get:57 http://172.17.0.1/private stretch-staging/main armhf libterm-readkey-perl armhf 2.33-1+b1 [29.4 kB]
Get:58 http://172.17.0.1/private stretch-staging/main armhf libtext-wrapper-perl all 1.05-2 [11.0 kB]
Get:59 http://172.17.0.1/private stretch-staging/main armhf libhwloc5 armhf 1.11.2-3 [80.8 kB]
Get:60 http://172.17.0.1/private stretch-staging/main armhf libhwloc-dev armhf 1.11.2-3 [133 kB]
Get:61 http://172.17.0.1/private stretch-staging/main armhf libibverbs1 armhf 1.1.8-1.1 [28.5 kB]
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Get:63 http://172.17.0.1/private stretch-staging/main armhf libopenmpi1.10 armhf 1.10.2-8+rpi1 [1781 kB]
Get:64 http://172.17.0.1/private stretch-staging/main armhf openmpi-common all 1.10.2-8+rpi1 [141 kB]
Get:65 http://172.17.0.1/private stretch-staging/main armhf libopenmpi-dev armhf 1.10.2-8+rpi1 [625 kB]
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+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.4.0-1-armmp armhf (armv7l)
Toolchain package versions: binutils_2.26-3 dpkg-dev_1.18.4 g++-5_5.3.1-10 gcc-5_5.3.1-10 libc6-dev_2.21-7 libstdc++-5-dev_5.3.1-10 libstdc++6_5.3.1-10 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch
Package versions: adduser_3.113+nmu3 apt_1.2.3 autotools-dev_20150820.1 base-files_9.5+rpi1 base-passwd_3.5.39 bash_4.3-14 binutils_2.26-3 bsdmainutils_9.0.6 bsdutils_1:2.27.1-3 build-essential_11.7 bzip2_1.0.6-8 coreutils_8.24-1 cpio_2.11+dfsg-4.1 cpp_4:5.3.1-1+rpi1 cpp-5_5.3.1-10 dash_0.5.8-2.1 debconf_1.5.58 debfoster_2.7-2 debhelper_9.20160115 debianutils_4.7 dh-strip-nondeterminism_0.016-1 diffutils_1:3.3-3 dmsetup_2:1.02.115-2 dpkg_1.18.4 dpkg-dev_1.18.4 e2fslibs_1.42.13-1 e2fsprogs_1.42.13-1 fakeroot_1.20.2-1 file_1:5.25-2 findutils_4.6.0+git+20160126-2 g++_4:5.3.1-1+rpi1 g++-5_5.3.1-10 gcc_4:5.3.1-1+rpi1 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8-base_4.8.5-4 gcc-4.9-base_4.9.3-10 gcc-5_5.3.1-10 gcc-5-base_5.3.1-10 gettext_0.19.7-2 gettext-base_0.19.7-2 gnupg_1.4.20-1 gpgv_1.4.20-1 grep_2.22-1 groff-base_1.22.3-7 gzip_1.6-4 hostname_3.16 icu-devtools_55.1-7 init_1.24 init-system-helpers_1.24 initramfs-tools_0.120 initscripts_2.88dsf-59.2 insserv_1.14.0-5.2 intltool-debian_0.35.0+20060710.4 klibc-utils_2.0.4-7+rpi1 kmod_22-1 libacl1_2.2.52-3 libapparmor1_2.10-3 libapt-pkg5.0_1.2.3 libarchive-zip-perl_1.56-2 libasan2_5.3.1-10 libatomic1_5.3.1-10 libattr1_1:2.4.47-2 libaudit-common_1:2.4.5-1 libaudit1_1:2.4.5-1 libblkid1_2.27.1-3 libboost-filesystem-dev_1.58.0.1+b1 libboost-filesystem1.58-dev_1.58.0+dfsg-5+b1 libboost-filesystem1.58.0_1.58.0+dfsg-5+b1 libboost-iostreams-dev_1.58.0.1+b1 libboost-iostreams1.58-dev_1.58.0+dfsg-5+b1 libboost-iostreams1.58.0_1.58.0+dfsg-5+b1 libboost-regex-dev_1.58.0.1+b1 libboost-regex1.58-dev_1.58.0+dfsg-5+b1 libboost-regex1.58.0_1.58.0+dfsg-5+b1 libboost-system1.58-dev_1.58.0+dfsg-5+b1 libboost-system1.58.0_1.58.0+dfsg-5+b1 libboost1.58-dev_1.58.0+dfsg-5+b1 libbz2-1.0_1.0.6-8 libc-bin_2.21-7 libc-dev-bin_2.21-7 libc6_2.21-7 libc6-dev_2.21-7 libcap2_1:2.24-12 libcap2-bin_1:2.24-12 libcc1-0_5.3.1-10 libcomerr2_1.42.13-1 libcroco3_0.6.11-1 libcrypto++-dev_5.6.1-9 libcrypto++9v5_5.6.1-9 libcryptsetup4_2:1.7.0-2 libdb5.3_5.3.28-11 libdbus-1-3_1.10.6-1 libdebconfclient0_0.204 libdevmapper1.02.1_2:1.02.115-2 libdpkg-perl_1.18.4 libdrm2_2.4.66-2 libfakeroot_1.20.2-1 libfdisk1_2.27.1-3 libffi6_3.2.1-4 libfile-stripnondeterminism-perl_0.016-1 libgc1c2_1:7.4.2-7.3 libgcc-5-dev_5.3.1-10 libgcc1_1:5.3.1-10 libgcrypt20_1.6.4-5 libgdbm3_1.8.3-13.1 libgfortran3_5.3.1-10 libglib2.0-0_2.46.2-3 libgmp10_2:6.1.0+dfsg-2 libgomp1_5.3.1-10 libgpg-error0_1.21-1 libhwloc-dev_1.11.2-3 libhwloc5_1.11.2-3 libibverbs-dev_1.1.8-1.1 libibverbs1_1.1.8-1.1 libicu-dev_55.1-7 libicu55_55.1-7 libisl15_0.16.1-1 libklibc_2.0.4-7+rpi1 libkmod2_22-1 libltdl-dev_2.4.6-0.1 libltdl7_2.4.6-0.1 liblz4-1_0.0~r131-1 liblzma5_5.1.1alpha+20120614-2.1 libmagic1_1:5.25-2 libmount1_2.27.1-3 libmpc3_1.0.3-1 libmpfr4_3.1.3-2 libncurses5_6.0+20151024-2 libncursesw5_6.0+20151024-2 libopenmpi-dev_1.10.2-8+rpi1 libopenmpi1.10_1.10.2-8+rpi1 libpam-modules_1.1.8-3.2 libpam-modules-bin_1.1.8-3.2 libpam-runtime_1.1.8-3.2 libpam0g_1.1.8-3.2 libpcre3_2:8.38-1 libperl5.22_5.22.1-5 libpipeline1_1.4.1-2 libpng12-0_1.2.54-1 libprocps5_2:3.3.11-3 libpstreams-dev_0.8.0-2 libreadline6_6.3-8+b3 libseccomp2_2.2.3-2 libselinux1_2.4-3 libsemanage-common_2.4-3 libsemanage1_2.4-3 libsepol1_2.4-2 libsmartcols1_2.27.1-3 libss2_1.42.13-1 libstdc++-5-dev_5.3.1-10 libstdc++6_5.3.1-10 libsystemd0_228-6 libterm-readkey-perl_2.33-1+b1 libtext-wrapper-perl_1.05-2 libtimedate-perl_2.3000-2 libtinfo5_6.0+20151024-2 libubsan0_5.3.1-10 libudev1_228-6 libunistring0_0.9.3-5.2 libusb-0.1-4_2:0.1.12-28 libustr-1.0-1_1.0.4-5 libuuid1_2.27.1-3 libxml2_2.9.3+dfsg1-1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch login_1:4.2-3.1 lsb-base_9.20160110+rpi1 make_4.1-5 makedev_2.3.1-93 man-db_2.7.5-1 manpages_4.04-1 mawk_1.3.3-17 mount_2.27.1-3 multiarch-support_2.21-7 nano_2.5.1-1 ncurses-base_6.0+20151024-2 ncurses-bin_6.0+20151024-2 openmpi-common_1.10.2-8+rpi1 passwd_1:4.2-3.1 patch_2.7.5-1 perl_5.22.1-5 perl-base_5.22.1-5 perl-modules-5.22_5.22.1-7 po-debconf_1.0.19 procps_2:3.3.11-3 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_4.2.2-6.1 sensible-utils_0.0.9 startpar_0.59-3 systemd_228-6 systemd-sysv_228-6 sysv-rc_2.88dsf-59.2 sysvinit-utils_2.88dsf-59.2 tar_1.28-2.1 tzdata_2016a-1 udev_228-6 util-linux_2.27.1-3 xz-utils_5.1.1alpha+20120614-2.1 zlib1g_1:1.2.8.dfsg-2+b1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Tue Nov 24 19:36:54 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_1.68.6-4.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_1.68.6-4.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
dpkg-source: info: applying freebsd.patch
Check disc space
----------------
Sufficient free space for build
Hack binNMU version
-------------------
Created changelog entry for binNMU version 1.68.6-4+b5
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=stretch-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=stretch-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=stretch-staging-armhf-sbuild-03d60c97-e333-4adb-92a9-7ea86ba35870
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: source package murasaki
dpkg-buildpackage: source version 1.68.6-4+b5
dpkg-buildpackage: source distribution stretch-staging
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_update_autotools_config -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 -Wdate-time -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::__cxx11::list<Location>&, int, int)':
murasaki.cc:1008:8: warning: variable 'revZero' set but not used [-Wunused-but-set-variable]
bool revZero=false;
^
murasaki.cc: In function 'bool convertPattern(std::__cxx11::string&)':
murasaki.cc:1284:27: warning: 'result' may be used uninitialized in this function [-Wmaybe-uninitialized]
randomStr.reserve(length-2);
^
mpicxx -Wdate-time -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 -Wdate-time -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::__cxx11::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::__cxx11::string littleEndianPat(unsigned int, int)':
dinkymath.cc:53:7: warning: variable 'last' set but not used [-Wunused-but-set-variable]
int last=0;
^
mpicxx -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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_types_init()':
murasaki_mpi.cc:107:3: warning: 'int MPI_Address(void*, MPI_Aint*)' is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations]
MPI_Address(&msg.key,disp);
^
In file included from murasaki_mpi.cc:29:0:
/usr/lib/openmpi/include/mpi.h:1187:20: note: declared here
OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address)
^
murasaki_mpi.cc:107:3: warning: 'int MPI_Address(void*, MPI_Aint*)' is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations]
MPI_Address(&msg.key,disp);
^
In file included from murasaki_mpi.cc:29:0:
/usr/lib/openmpi/include/mpi.h:1187:20: note: declared here
OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address)
^
murasaki_mpi.cc:107:28: warning: 'int MPI_Address(void*, MPI_Aint*)' is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations]
MPI_Address(&msg.key,disp);
^
In file included from murasaki_mpi.cc:29:0:
/usr/lib/openmpi/include/mpi.h:1187:20: note: declared here
OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address)
^
murasaki_mpi.cc:108:3: warning: 'int MPI_Address(void*, MPI_Aint*)' is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations]
MPI_Address(&msg.seqno,disp+1);
^
In file included from murasaki_mpi.cc:29:0:
/usr/lib/openmpi/include/mpi.h:1187:20: note: declared here
OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address)
^
murasaki_mpi.cc:108:3: warning: 'int MPI_Address(void*, MPI_Aint*)' is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations]
MPI_Address(&msg.seqno,disp+1);
^
In file included from murasaki_mpi.cc:29:0:
/usr/lib/openmpi/include/mpi.h:1187:20: note: declared here
OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address)
^
murasaki_mpi.cc:108:32: warning: 'int MPI_Address(void*, MPI_Aint*)' is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations]
MPI_Address(&msg.seqno,disp+1);
^
In file included from murasaki_mpi.cc:29:0:
/usr/lib/openmpi/include/mpi.h:1187:20: note: declared here
OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address)
^
murasaki_mpi.cc:109:3: warning: 'int MPI_Address(void*, MPI_Aint*)' is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations]
MPI_Address(&msg.pos,disp+1);
^
In file included from murasaki_mpi.cc:29:0:
/usr/lib/openmpi/include/mpi.h:1187:20: note: declared here
OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address)
^
murasaki_mpi.cc:109:3: warning: 'int MPI_Address(void*, MPI_Aint*)' is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations]
MPI_Address(&msg.pos,disp+1);
^
In file included from murasaki_mpi.cc:29:0:
/usr/lib/openmpi/include/mpi.h:1187:20: note: declared here
OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address)
^
murasaki_mpi.cc:109:30: warning: 'int MPI_Address(void*, MPI_Aint*)' is deprecated: MPI_Address is superseded by MPI_Get_address in MPI-2.0 [-Wdeprecated-declarations]
MPI_Address(&msg.pos,disp+1);
^
In file included from murasaki_mpi.cc:29:0:
/usr/lib/openmpi/include/mpi.h:1187:20: note: declared here
OMPI_DECLSPEC int MPI_Address(void *location, MPI_Aint *address)
^
murasaki_mpi.cc:112:3: warning: 'int MPI_Type_struct(int, int*, MPI_Aint*, ompi_datatype_t**, ompi_datatype_t**)' is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations]
MPI_Type_struct(3,blocklen,disp,type,&MPI_HashMessage_type);
^
In file included from murasaki_mpi.cc:29:0:
/usr/lib/openmpi/include/mpi.h:1796:20: note: declared here
OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[],
^
murasaki_mpi.cc:112:3: warning: 'int MPI_Type_struct(int, int*, MPI_Aint*, ompi_datatype_t**, ompi_datatype_t**)' is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations]
MPI_Type_struct(3,blocklen,disp,type,&MPI_HashMessage_type);
^
In file included from murasaki_mpi.cc:29:0:
/usr/lib/openmpi/include/mpi.h:1796:20: note: declared here
OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[],
^
murasaki_mpi.cc:112:61: warning: 'int MPI_Type_struct(int, int*, MPI_Aint*, ompi_datatype_t**, ompi_datatype_t**)' is deprecated: MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0 [-Wdeprecated-declarations]
MPI_Type_struct(3,blocklen,disp,type,&MPI_HashMessage_type);
^
In file included from murasaki_mpi.cc:29:0:
/usr/lib/openmpi/include/mpi.h:1796:20: note: declared here
OMPI_DECLSPEC int MPI_Type_struct(int count, int array_of_blocklengths[],
^
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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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::__cxx11::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::__cxx11::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::__cxx11::string)':
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::__cxx11::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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 [-Wshift-count-overflow]
return (long)(((unsigned long)(rand())<<32) + ((unsigned long)(rand())));
^
mpicxx -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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 -Wdate-time -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++ -Wdate-time -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::__cxx11::list<Location>&, int, int)':
murasaki.cc:1008:8: warning: variable 'revZero' set but not used [-Wunused-but-set-variable]
bool revZero=false;
^
murasaki.cc: In function 'bool convertPattern(std::__cxx11::string&)':
murasaki.cc:1284:27: warning: 'result' may be used uninitialized in this function [-Wmaybe-uninitialized]
randomStr.reserve(length-2);
^
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c timing.cc
g++ -Wdate-time -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::__cxx11::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::__cxx11::string littleEndianPat(unsigned int, int)':
dinkymath.cc:53:7: warning: variable 'last' set but not used [-Wunused-but-set-variable]
int last=0;
^
g++ -Wdate-time -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++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c msethash.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c options.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c ecohash.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c ecolist.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c murasaki_mpi.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c arrayhash.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c seqread.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c scoring.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c openhash.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c genopts.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c binseq.cc
g++ -Wdate-time -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++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c cgr-image.cc
g++ -Wdate-time -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::__cxx11::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::__cxx11::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::__cxx11::string)':
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::__cxx11::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++ -Wdate-time -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++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c cgr-compare.cc
g++ -Wdate-time -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++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c cgr-random.cc
g++ -Wdate-time -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++ -Wdate-time -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++ -Wdate-time -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++ -Wdate-time -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 [-Wshift-count-overflow]
return (long)(((unsigned long)(rand())<<32) + ((unsigned long)(rand())));
^
g++ -Wdate-time -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++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c align-compare.cc
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c alignments.cc
g++ -Wdate-time -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++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c align-or.cc
g++ -Wdate-time -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++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c geneparse.cc
g++ -Wdate-time -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++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c align-and.cc
g++ -Wdate-time -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++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c align-best.cc
g++ -Wdate-time -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++ -Wdate-time -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++ -Wdate-time -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++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c getsegments.cc
g++ -Wdate-time -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++ -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -DNDEBUG -g -I/usr/include/pstreams -Wall -DLARGESEQ_SUPPORT -DUSE_LIBCRYPTOPP -fno-strict-aliasing -c mbfa.cc
g++ -Wdate-time -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-arch
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_install -a
# 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_strip_nondeterminism -a
dh_compress -a
dh_fixperms -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
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/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-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-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-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/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/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/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/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-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/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/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/geneparse 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/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/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-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/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/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-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-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/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/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/align-and-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: package could avoid a useless dependency if debian/murasaki-mpi/usr/lib/murasaki/align-coverage-mpi debian/murasaki-mpi/usr/bin/geneparse-mpi debian/murasaki-mpi/usr/lib/murasaki/testeco-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/cgr-random-mpi debian/murasaki-mpi/usr/bin/mbfa-mpi debian/murasaki-mpi/usr/lib/murasaki/align-compare-mpi debian/murasaki-mpi/usr/lib/murasaki/cgr-image-mpi debian/murasaki-mpi/usr/lib/murasaki/align-best-mpi debian/murasaki-mpi/usr/bin/murasaki-mpi debian/murasaki-mpi/usr/lib/murasaki/align-and-mpi debian/murasaki-mpi/usr/lib/murasaki/cgr-compare-mpi were not linked against libmpi_cxx.so.1 (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: File::FcntlLock not available; using flock which is not NFS-safe
dpkg-gencontrol: warning: package murasaki-mpi: unused substitution variable ${perl:Depends}
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-dbgsym' in '../murasaki-dbgsym_1.68.6-4+b5_armhf.deb'.
dpkg-deb: building package 'murasaki-mpi-dbgsym' in '../murasaki-mpi-dbgsym_1.68.6-4+b5_armhf.deb'.
dpkg-deb: building package 'murasaki-mpi' in '../murasaki-mpi_1.68.6-4+b5_armhf.deb'.
dpkg-deb: building package 'murasaki' in '../murasaki_1.68.6-4+b5_armhf.deb'.
dpkg-genchanges -B -mRaspbian wandboard test autobuilder <root@raspbian.org> >../murasaki_1.68.6-4+b5_armhf.changes
dpkg-genchanges: warning: package murasaki-dbgsym listed in files list but not in control info
dpkg-genchanges: warning: package murasaki-mpi-dbgsym listed in files list but not in control info
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 20160310-0538
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
murasaki_1.68.6-4+b5_armhf.changes:
-----------------------------------
Format: 1.8
Date: Tue, 24 Nov 2015 20:25:15 +0100
Source: murasaki (1.68.6-4)
Binary: murasaki murasaki-mpi murasaki-common
Binary-Only: yes
Architecture: armhf
Version: 1.68.6-4+b5
Distribution: stretch-staging
Urgency: low
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Raspbian wandboard test autobuilder <root@raspbian.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
Changes:
murasaki (1.68.6-4+b5) stretch-staging; urgency=low, binary-only=yes
.
* Binary-only non-maintainer upload for armhf; no source changes.
* rebuild due to debcheck failure
Checksums-Sha1:
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6a1ef75e54b85a876a1a41a02412f48df0fe3e41 10066898 murasaki-mpi-dbgsym_1.68.6-4+b5_armhf.deb
2189574266adac9d5d0f17f77be33fe02e9818e0 387822 murasaki-mpi_1.68.6-4+b5_armhf.deb
acfb020a7a53a126ed266a102700fcca7b815fc2 372316 murasaki_1.68.6-4+b5_armhf.deb
Checksums-Sha256:
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ac2982797cdfd168f59a8fbc7e40a1d53f486599854de7bcab0959f0f4be933b 10066898 murasaki-mpi-dbgsym_1.68.6-4+b5_armhf.deb
e7ee2ab9fca75ad1953de9adee51541a8e6b1ad61f6badce9bf21fe412ee534f 387822 murasaki-mpi_1.68.6-4+b5_armhf.deb
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Files:
a47151efabc1453ef113e151f241b35c 9607588 debug extra murasaki-dbgsym_1.68.6-4+b5_armhf.deb
068f0093a948dbe467ca254576f19244 10066898 debug extra murasaki-mpi-dbgsym_1.68.6-4+b5_armhf.deb
902e9fd041730d69f2e1c0d96b9b6c5d 387822 science optional murasaki-mpi_1.68.6-4+b5_armhf.deb
2e72711fd5fa4768899ceca47e2c240c 372316 science optional murasaki_1.68.6-4+b5_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
murasaki-dbgsym_1.68.6-4+b5_armhf.deb
-------------------------------------
new debian package, version 2.0.
size 9607588 bytes: control archive=1159 bytes.
935 bytes, 13 lines control
1378 bytes, 13 lines md5sums
Package: murasaki-dbgsym
Source: murasaki (1.68.6-4)
Version: 1.68.6-4+b5
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 10449
Depends: murasaki (= 1.68.6-4+b5)
Section: debug
Priority: extra
Homepage: http://murasaki.dna.bio.keio.ac.jp/wiki/
Description: Debug symbols for murasaki
Auto-Built-Package: debug-symbols
Build-Ids: 050135b87a596a175e727f9e52df0c00a6e50583 12dc70986c2802c831894fdcee6b3165f6fff370 143207d30e8e67976121b5b77b1bf014035f309c 563794e578f8d79d3d5942d7fa765c9cfbaac15d 681e1216a4dd1eefc8397c560ad2c3290f611557 7aab115f562e4cde1ef9ca0c4e48102ba78a30eb a3765e79207382db1c26f00d93685b839a8fe095 caf7113e4daaeab693aaaa2e11a1513db2c8b42a cd8b26a6ac52c44f5e46879bb1d007531b44deb0 d434cd1a2a46bccf7b69815b6e0fc0ca1124da5c e693a7abe09619a5e3e033d755a5eecabcc3cae9 f16b9e0475dd578099b1cc75256dc3fa88c20c3b fa07c93446534568ba5a5dd8e04817fa37027d08
drwxr-xr-x root/root 0 2016-03-10 05:38 ./
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/05/
-rw-r--r-- root/root 614916 2016-03-10 05:36 ./usr/lib/debug/.build-id/05/0135b87a596a175e727f9e52df0c00a6e50583.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/12/
-rw-r--r-- root/root 682572 2016-03-10 05:36 ./usr/lib/debug/.build-id/12/dc70986c2802c831894fdcee6b3165f6fff370.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/14/
-rw-r--r-- root/root 318944 2016-03-10 05:36 ./usr/lib/debug/.build-id/14/3207d30e8e67976121b5b77b1bf014035f309c.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/56/
-rw-r--r-- root/root 428772 2016-03-10 05:36 ./usr/lib/debug/.build-id/56/3794e578f8d79d3d5942d7fa765c9cfbaac15d.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/68/
-rw-r--r-- root/root 2419308 2016-03-10 05:36 ./usr/lib/debug/.build-id/68/1e1216a4dd1eefc8397c560ad2c3290f611557.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/7a/
-rw-r--r-- root/root 653036 2016-03-10 05:36 ./usr/lib/debug/.build-id/7a/ab115f562e4cde1ef9ca0c4e48102ba78a30eb.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/a3/
-rw-r--r-- root/root 421368 2016-03-10 05:36 ./usr/lib/debug/.build-id/a3/765e79207382db1c26f00d93685b839a8fe095.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/ca/
-rw-r--r-- root/root 642292 2016-03-10 05:36 ./usr/lib/debug/.build-id/ca/f7113e4daaeab693aaaa2e11a1513db2c8b42a.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/cd/
-rw-r--r-- root/root 906456 2016-03-10 05:36 ./usr/lib/debug/.build-id/cd/8b26a6ac52c44f5e46879bb1d007531b44deb0.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/d4/
-rw-r--r-- root/root 847688 2016-03-10 05:36 ./usr/lib/debug/.build-id/d4/34cd1a2a46bccf7b69815b6e0fc0ca1124da5c.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/e6/
-rw-r--r-- root/root 802768 2016-03-10 05:36 ./usr/lib/debug/.build-id/e6/93a7abe09619a5e3e033d755a5eecabcc3cae9.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/f1/
-rw-r--r-- root/root 825140 2016-03-10 05:36 ./usr/lib/debug/.build-id/f1/6b9e0475dd578099b1cc75256dc3fa88c20c3b.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/fa/
-rw-r--r-- root/root 1108192 2016-03-10 05:36 ./usr/lib/debug/.build-id/fa/07c93446534568ba5a5dd8e04817fa37027d08.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/share/
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/share/doc/
lrwxrwxrwx root/root 0 2016-03-10 05:36 ./usr/share/doc/murasaki-dbgsym -> murasaki
murasaki-mpi-dbgsym_1.68.6-4+b5_armhf.deb
-----------------------------------------
new debian package, version 2.0.
size 10066898 bytes: control archive=1162 bytes.
947 bytes, 13 lines control
1378 bytes, 13 lines md5sums
Package: murasaki-mpi-dbgsym
Source: murasaki (1.68.6-4)
Version: 1.68.6-4+b5
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 10911
Depends: murasaki-mpi (= 1.68.6-4+b5)
Section: debug
Priority: extra
Homepage: http://murasaki.dna.bio.keio.ac.jp/wiki/
Description: Debug symbols for murasaki-mpi
Auto-Built-Package: debug-symbols
Build-Ids: 16cb20e2c53704efb505fa3aafc8b721700c583c 1bf27bd7d87253508f23166b367c3afdbfa79e5b 313a397bfc90e9b9c6aaf42e7d32d3f055fa6940 372263d2663a040444ff27f0e4d7c0d0c86e271f 529b7ef829deb00623eed4534ee7e2f6a1c5b67a 700739027ee597a79dacae8dccdf498ed0526fbe 80ea14466fafc80ed0868f21a75670b0e4c05d78 83495a6856e7abedd0bcb67026d29a8269eb8c52 8967257f8c5c28619eea53b95e89d1806c4e85cb 9f6dd3536af0dca805a2d07442f1a05845d6f72a c426d6c8d7b3f3cda06142ae0e4b5039f73d1c46 d67d55ed907bbb119cafcf6799cbd0407b460005 ffc1671fe99fe5ac9bd47512bcd76a7bb9ca2ae2
drwxr-xr-x root/root 0 2016-03-10 05:38 ./
drwxr-xr-x root/root 0 2016-03-10 05:37 ./usr/
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/
drwxr-xr-x root/root 0 2016-03-10 05:37 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2016-03-10 05:37 ./usr/lib/debug/.build-id/16/
-rw-r--r-- root/root 1112228 2016-03-10 05:37 ./usr/lib/debug/.build-id/16/cb20e2c53704efb505fa3aafc8b721700c583c.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/1b/
-rw-r--r-- root/root 656820 2016-03-10 05:36 ./usr/lib/debug/.build-id/1b/f27bd7d87253508f23166b367c3afdbfa79e5b.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/31/
-rw-r--r-- root/root 825124 2016-03-10 05:36 ./usr/lib/debug/.build-id/31/3a397bfc90e9b9c6aaf42e7d32d3f055fa6940.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/37/
-rw-r--r-- root/root 910896 2016-03-10 05:36 ./usr/lib/debug/.build-id/37/2263d2663a040444ff27f0e4d7c0d0c86e271f.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/52/
-rw-r--r-- root/root 2847464 2016-03-10 05:36 ./usr/lib/debug/.build-id/52/9b7ef829deb00623eed4534ee7e2f6a1c5b67a.debug
drwxr-xr-x root/root 0 2016-03-10 05:37 ./usr/lib/debug/.build-id/70/
-rw-r--r-- root/root 806576 2016-03-10 05:37 ./usr/lib/debug/.build-id/70/0739027ee597a79dacae8dccdf498ed0526fbe.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/80/
-rw-r--r-- root/root 686488 2016-03-10 05:36 ./usr/lib/debug/.build-id/80/ea14466fafc80ed0868f21a75670b0e4c05d78.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/83/
-rw-r--r-- root/root 327784 2016-03-10 05:36 ./usr/lib/debug/.build-id/83/495a6856e7abedd0bcb67026d29a8269eb8c52.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/89/
-rw-r--r-- root/root 851344 2016-03-10 05:36 ./usr/lib/debug/.build-id/89/67257f8c5c28619eea53b95e89d1806c4e85cb.debug
drwxr-xr-x root/root 0 2016-03-10 05:37 ./usr/lib/debug/.build-id/9f/
-rw-r--r-- root/root 646088 2016-03-10 05:37 ./usr/lib/debug/.build-id/9f/6dd3536af0dca805a2d07442f1a05845d6f72a.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/c4/
-rw-r--r-- root/root 425388 2016-03-10 05:36 ./usr/lib/debug/.build-id/c4/26d6c8d7b3f3cda06142ae0e4b5039f73d1c46.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/d6/
-rw-r--r-- root/root 614752 2016-03-10 05:36 ./usr/lib/debug/.build-id/d6/7d55ed907bbb119cafcf6799cbd0407b460005.debug
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/debug/.build-id/ff/
-rw-r--r-- root/root 432824 2016-03-10 05:36 ./usr/lib/debug/.build-id/ff/c1671fe99fe5ac9bd47512bcd76a7bb9ca2ae2.debug
drwxr-xr-x root/root 0 2016-03-10 05:37 ./usr/share/
drwxr-xr-x root/root 0 2016-03-10 05:37 ./usr/share/doc/
lrwxrwxrwx root/root 0 2016-03-10 05:37 ./usr/share/doc/murasaki-mpi-dbgsym -> murasaki-mpi
murasaki-mpi_1.68.6-4+b5_armhf.deb
----------------------------------
new debian package, version 2.0.
size 387822 bytes: control archive=1470 bytes.
1395 bytes, 28 lines control
1130 bytes, 17 lines md5sums
Package: murasaki-mpi
Source: murasaki (1.68.6-4)
Version: 1.68.6-4+b5
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 2460
Depends: murasaki-common, libboost-filesystem1.58.0, libboost-iostreams1.58.0, libboost-regex1.58.0, libboost-system1.58.0, libc6 (>= 2.4), libcrypto++9v5, libgcc1 (>= 1:3.5), libopenmpi1.10, libstdc++6 (>= 5.2)
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 2016-03-10 05:37 ./
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/bin/
-rwxr-xr-x root/root 182552 2016-03-10 05:36 ./usr/bin/geneparse-mpi
-rwxr-xr-x root/root 219472 2016-03-10 05:36 ./usr/bin/mbfa-mpi
-rwxr-xr-x root/root 585576 2016-03-10 05:36 ./usr/bin/murasaki-mpi
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/
drwxr-xr-x root/root 0 2016-03-10 05:37 ./usr/lib/murasaki/
-rwxr-xr-x root/root 145432 2016-03-10 05:36 ./usr/lib/murasaki/align-and-mpi
-rwxr-xr-x root/root 149556 2016-03-10 05:36 ./usr/lib/murasaki/align-best-mpi
-rwxr-xr-x root/root 161868 2016-03-10 05:37 ./usr/lib/murasaki/align-compare-mpi
-rwxr-xr-x root/root 227632 2016-03-10 05:37 ./usr/lib/murasaki/align-coverage-mpi
-rwxr-xr-x root/root 141320 2016-03-10 05:37 ./usr/lib/murasaki/align-or-mpi
-rwxr-xr-x root/root 79804 2016-03-10 05:36 ./usr/lib/murasaki/cgr-compare-mpi
-rwxr-xr-x root/root 231796 2016-03-10 05:36 ./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 84004 2016-03-10 05:36 ./usr/lib/murasaki/cgr-random-mpi
-rwxr-xr-x root/root 223556 2016-03-10 05:36 ./usr/lib/murasaki/cgr-sample-mpi
-rwxr-xr-x root/root 50956 2016-03-10 05:36 ./usr/lib/murasaki/testeco-mpi
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/share/
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/share/doc/
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/share/doc/murasaki-mpi/
-rw-r--r-- root/root 223 2016-03-10 05:05 ./usr/share/doc/murasaki-mpi/changelog.Debian.armhf.gz
-rw-r--r-- root/root 487 2016-03-10 05:05 ./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 2016-03-10 05:36 ./usr/share/man/
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/share/man/man1/
lrwxrwxrwx root/root 0 2016-03-10 05:36 ./usr/share/man/man1/geneparse-mpi.1.gz -> geneparse.1.gz
lrwxrwxrwx root/root 0 2016-03-10 05:36 ./usr/share/man/man1/mbfa-mpi.1.gz -> mbfa.1.gz
lrwxrwxrwx root/root 0 2016-03-10 05:36 ./usr/share/man/man1/murasaki-mpi.1.gz -> murasaki.1.gz
murasaki_1.68.6-4+b5_armhf.deb
------------------------------
new debian package, version 2.0.
size 372316 bytes: control archive=1448 bytes.
1191 bytes, 24 lines control
1267 bytes, 20 lines md5sums
Package: murasaki
Source: murasaki (1.68.6-4)
Version: 1.68.6-4+b5
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 2388
Depends: murasaki-common, libboost-filesystem1.58.0, libboost-iostreams1.58.0, libboost-regex1.58.0, libboost-system1.58.0, libc6 (>= 2.4), libcrypto++9v5, libgcc1 (>= 1:3.5), libstdc++6 (>= 5.2)
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 2016-03-10 05:37 ./
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/bin/
-rwxr-xr-x root/root 182552 2016-03-10 05:36 ./usr/bin/geneparse
-rwxr-xr-x root/root 219472 2016-03-10 05:36 ./usr/bin/mbfa
-rwxr-xr-x root/root 503528 2016-03-10 05:36 ./usr/bin/murasaki
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/lib/murasaki/
-rwxr-xr-x root/root 145432 2016-03-10 05:36 ./usr/lib/murasaki/align-and
-rwxr-xr-x root/root 149556 2016-03-10 05:36 ./usr/lib/murasaki/align-best
-rwxr-xr-x root/root 161868 2016-03-10 05:36 ./usr/lib/murasaki/align-compare
-rwxr-xr-x root/root 227632 2016-03-10 05:36 ./usr/lib/murasaki/align-coverage
-rwxr-xr-x root/root 141320 2016-03-10 05:36 ./usr/lib/murasaki/align-or
-rwxr-xr-x root/root 79804 2016-03-10 05:36 ./usr/lib/murasaki/cgr-compare
-rwxr-xr-x root/root 231796 2016-03-10 05:36 ./usr/lib/murasaki/cgr-image
-rwxr-xr-x root/root 84004 2016-03-10 05:36 ./usr/lib/murasaki/cgr-random
-rwxr-xr-x root/root 223556 2016-03-10 05:36 ./usr/lib/murasaki/cgr-sample
-rwxr-xr-x root/root 50956 2016-03-10 05:36 ./usr/lib/murasaki/testeco
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/share/
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/share/doc/
drwxr-xr-x root/root 0 2016-03-10 05:36 ./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 223 2016-03-10 05:05 ./usr/share/doc/murasaki/changelog.Debian.armhf.gz
-rw-r--r-- root/root 487 2016-03-10 05:05 ./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 2016-03-10 05:36 ./usr/share/man/
drwxr-xr-x root/root 0 2016-03-10 05:36 ./usr/share/man/man1/
-rw-r--r-- root/root 2518 2016-03-10 05:36 ./usr/share/man/man1/geneparse.1.gz
-rw-r--r-- root/root 2721 2016-03-10 05:36 ./usr/share/man/man1/mbfa.1.gz
-rw-r--r-- root/root 10888 2016-03-10 05:36 ./usr/share/man/man1/murasaki.1.gz
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 143136
Build-Time: 2003
Distribution: stretch-staging
Host Architecture: armhf
Install-Time: 373
Job: murasaki_1.68.6-4
Machine Architecture: armhf
Package: murasaki
Package-Time: 2416
Source-Version: 1.68.6-4
Space: 143136
Status: successful
Version: 1.68.6-4+b5
--------------------------------------------------------------------------------
Finished at 20160310-0538
Build needed 00:40:16, 143136k disc space