snp-sites →
1.5.0-1 →
armhf → 2014-02-12 05:54:54
sbuild (Debian sbuild) 0.63.2 (18 Aug 2012) on bm-wb-03
╔══════════════════════════════════════════════════════════════════════════════╗
║ snp-sites 1.5.0-1 (armhf) 12 Feb 2014 05:49 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: snp-sites
Version: 1.5.0-1
Source Version: 1.5.0-1
Distribution: jessie-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'build/snp-sites-gKciV2/snp-sites-1.5.0' with '«PKGBUILDDIR»'
I: NOTICE: Log filtering will replace 'build/snp-sites-gKciV2' with '«BUILDDIR»'
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/jessie-staging-armhf-sbuild-71caea05-4c93-4d2e-97e8-bc0627eed4c8' with '«CHROOT»'
┌──────────────────────────────────────────────────────────────────────────────┐
│ Update chroot │
└──────────────────────────────────────────────────────────────────────────────┘
Get:1 http://172.17.0.1 jessie-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1 jessie-staging/main Sources [7254 kB]
Get:3 http://172.17.0.1 jessie-staging/main armhf Packages [8372 kB]
Ign http://172.17.0.1 jessie-staging/main Translation-en
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Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Fetch source files │
└──────────────────────────────────────────────────────────────────────────────┘
Check APT
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Checking available source versions...
Download source files with APT
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Reading package lists...
Building dependency tree...
Reading state information...
NOTICE: 'snp-sites' packaging is maintained in the 'Git' version control system at:
git://anonscm.debian.org/debian-med/snp-sites.git
Need to get 47.5 kB of source archives.
Get:1 http://172.17.0.1/private/ jessie-staging/main snp-sites 1.5.0-1 (dsc) [2154 B]
Get:2 http://172.17.0.1/private/ jessie-staging/main snp-sites 1.5.0-1 (tar) [42.0 kB]
Get:3 http://172.17.0.1/private/ jessie-staging/main snp-sites 1.5.0-1 (diff) [3288 B]
Fetched 47.5 kB in 0s (208 kB/s)
Download complete and in download only mode
Check arch
──────────
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-lwKQxi/apt_archive/sbuild-build-depends-core-dummy.deb'.
OK
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Install core build dependencies (apt-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
debconf: delaying package configuration, since apt-utils is not installed
0 upgraded, 1 newly installed, 0 to remove and 30 not upgraded.
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Merged Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit, sysvinit-utils, tar, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 9.0.0), autotools-dev, zlib1g-dev, check, dh-autoreconf, d-shlibs, libxml2-utils, docbook, docbook-xsl, xsltproc, asciidoc
Filtered Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit, sysvinit-utils, tar, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 9.0.0), autotools-dev, zlib1g-dev, check, dh-autoreconf, d-shlibs, libxml2-utils, docbook, docbook-xsl, xsltproc, asciidoc
dpkg-deb: building package `sbuild-build-depends-snp-sites-dummy' in `/«BUILDDIR»/resolver-DHFShp/apt_archive/sbuild-build-depends-snp-sites-dummy.deb'.
OK
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Install snp-sites build dependencies (apt-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following extra packages will be installed:
asciidoc autoconf automake autopoint autotools-dev bsdmainutils check
d-shlibs debhelper dh-autoreconf docbook docbook-xsl file gettext
gettext-base groff-base intltool-debian libasprintf0c2 libcroco3 libexpat1
libffi6 libgcrypt11 libglib2.0-0 libgpg-error0 libmagic1 libpipeline1
libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libsigsegv2
libsqlite3-0 libssl1.0.0 libtool libunistring0 libxml2 libxml2-utils
libxslt1.1 m4 man-db mime-support po-debconf python python-minimal python2.7
python2.7-minimal sgml-base sgml-data xml-core xsltproc zlib1g-dev
Suggested packages:
source-highlight vim-addon-manager autoconf2.13 autoconf-archive
gnu-standards autoconf-doc wamerican wordlist whois vacation dh-make
docbook-defguide docbook-dsssl docbook-xml psgml dbtoepub
docbook-xsl-doc-html docbook-xsl-doc-pdf docbook-xsl-doc-text
docbook-xsl-doc docbook-xsl-saxon fop libsaxon-java libxalan2-java
libxslthl-java xalan gettext-doc groff rng-tools libtool-doc automaken
gfortran fortran95-compiler gcj-jdk less www-browser libmail-box-perl
python-doc python-tk python2.7-doc binfmt-support sgml-base-doc perlsgml
w3-recs opensp
Recommended packages:
dblatex docbook-utils xmlto curl wget lynx-cur libasprintf-dev
libgettextpo-dev libglib2.0-data shared-mime-info libltdl-dev
libmail-sendmail-perl
The following NEW packages will be installed:
asciidoc autoconf automake autopoint autotools-dev bsdmainutils check
d-shlibs debhelper dh-autoreconf docbook docbook-xsl file gettext
gettext-base groff-base intltool-debian libasprintf0c2 libcroco3 libexpat1
libffi6 libgcrypt11 libglib2.0-0 libgpg-error0 libmagic1 libpipeline1
libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libsigsegv2
libsqlite3-0 libssl1.0.0 libtool libunistring0 libxml2 libxml2-utils
libxslt1.1 m4 man-db mime-support po-debconf python python-minimal python2.7
python2.7-minimal sbuild-build-depends-snp-sites-dummy sgml-base sgml-data
xml-core xsltproc zlib1g-dev
0 upgraded, 51 newly installed, 0 to remove and 30 not upgraded.
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Get:46 http://172.17.0.1/private/ jessie-staging/main docbook all 4.5-5.1 [453 kB]
Get:47 http://172.17.0.1/private/ jessie-staging/main docbook-xsl all 1.78.1+dfsg-1 [2339 kB]
Get:48 http://172.17.0.1/private/ jessie-staging/main libxml2-utils armhf 2.9.1+dfsg1-3 [96.4 kB]
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Get:50 http://172.17.0.1/private/ jessie-staging/main zlib1g-dev armhf 1:1.2.8.dfsg-1 [212 kB]
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Setting up libgcrypt11:armhf (1.5.3-3) ...
Setting up libmagic1:armhf (1:5.14-2) ...
Setting up libsqlite3-0:armhf (3.8.2-1) ...
Setting up libxml2:armhf (2.9.1+dfsg1-3) ...
Setting up libpython2.7-minimal:armhf (2.7.6-5) ...
Setting up python2.7-minimal (2.7.6-5) ...
Setting up libffi6:armhf (3.0.13-12) ...
Setting up libglib2.0-0:armhf (2.36.4-1) ...
No schema files found: doing nothing.
Setting up libcroco3:armhf (0.6.8-2) ...
Setting up libexpat1:armhf (2.1.0-4) ...
Setting up libsigsegv2:armhf (2.10-2) ...
Setting up libunistring0:armhf (0.9.3-5) ...
Setting up libxslt1.1:armhf (1.1.28-2) ...
Setting up sgml-base (1.26+nmu4) ...
Setting up file (1:5.14-2) ...
Setting up gettext-base (0.18.3.2-1) ...
Setting up mime-support (3.54) ...
update-alternatives: using /usr/bin/see to provide /usr/bin/view (view) in auto mode
Setting up libpython2.7-stdlib:armhf (2.7.6-5) ...
Setting up m4 (1.4.17-2) ...
Setting up python2.7 (2.7.6-5) ...
Setting up python-minimal (2.7.5-5) ...
Setting up libpython-stdlib:armhf (2.7.5-5) ...
Setting up python (2.7.5-5) ...
Setting up asciidoc (8.6.9-1) ...
Setting up autoconf (2.69-2) ...
Setting up autotools-dev (20130810.1) ...
Setting up automake (1:1.14.1-2) ...
update-alternatives: using /usr/bin/automake-1.14 to provide /usr/bin/automake (automake) in auto mode
Setting up autopoint (0.18.3.2-1) ...
Setting up check:armhf (0.9.10-6) ...
Setting up d-shlibs (0.54) ...
Setting up gettext (0.18.3.2-1) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu2) ...
Setting up debhelper (9.20131227) ...
Setting up libtool (2.4.2-1.6) ...
Setting up dh-autoreconf (9) ...
Setting up xml-core (0.13+nmu2) ...
Setting up libxml2-utils (2.9.1+dfsg1-3) ...
Setting up xsltproc (1.1.28-2) ...
Setting up zlib1g-dev:armhf (1:1.2.8.dfsg-1) ...
Processing triggers for sgml-base (1.26+nmu4) ...
Setting up docbook-xsl (1.78.1+dfsg-1) ...
Setting up sgml-data (2.0.9-1) ...
Processing triggers for sgml-base (1.26+nmu4) ...
Setting up docbook (4.5-5.1) ...
Processing triggers for sgml-base (1.26+nmu4) ...
Setting up sbuild-build-depends-snp-sites-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.17-97) ...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build environment │
└──────────────────────────────────────────────────────────────────────────────┘
Kernel: Linux 3.13-trunk-armmp armhf (armv7l)
Toolchain package versions: binutils_2.24-2 dpkg-dev_1.17.5+rpi1 g++-4.8_4.8.2-14 gcc-4.8_4.8.2-14 libc6-dev_2.17-97 libstdc++-4.8-dev_4.8.2-14 libstdc++6_4.8.2-14 linux-libc-dev_3.12.6-2+rpi1
Package versions: apt_0.9.14.2 asciidoc_8.6.9-1 autoconf_2.69-2 automake_1:1.14.1-2 autopoint_0.18.3.2-1 autotools-dev_20130810.1 base-files_7.2+rpi1 base-passwd_3.5.28 bash_4.2+dfsg-1 binutils_2.24-2 bsdmainutils_9.0.5 bsdutils_1:2.20.1-5.5 build-essential_11.6 bzip2_1.0.6-5 check_0.9.10-6 coreutils_8.21-1 cpio_2.11+dfsg-1 cpp_4:4.8.2-1 cpp-4.8_4.8.2-14 d-shlibs_0.54 dash_0.5.7-4 debconf_1.5.52 debconf-i18n_1.5.52 debfoster_2.7-1.2 debhelper_9.20131227 debianutils_4.4 dh-autoreconf_9 diffutils_1:3.3-1 docbook_4.5-5.1 docbook-xsl_1.78.1+dfsg-1 dpkg_1.17.5+rpi1 dpkg-dev_1.17.5+rpi1 e2fslibs_1.42.9-2 e2fsprogs_1.42.9-2 fakeroot_1.18.4-2 file_1:5.14-2 findutils_4.4.2-7 g++_4:4.8.2-1 g++-4.8_4.8.2-14 gcc_4:4.8.2-1 gcc-4.5-base_4.5.3-12+rpi1 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-9+rpi1 gcc-4.8_4.8.2-14 gcc-4.8-base_4.8.2-14 gettext_0.18.3.2-1 gettext-base_0.18.3.2-1 gnupg_1.4.16-1 gpgv_1.4.16-1 grep_2.15-2 groff-base_1.22.2-5 gzip_1.6-3 hostname_3.15 initramfs-tools_0.115 initscripts_2.88dsf-45 insserv_1.14.0-5 intltool-debian_0.35.0+20060710.1 klibc-utils_2.0.2-1+rpi1 kmod_16-2 libacl1_2.2.52-1 libapt-pkg4.12_0.9.14.2 libasan0_4.8.2-14 libasprintf0c2_0.18.3.2-1 libatomic1_4.8.2-14 libattr1_1:2.4.47-1 libaudit-common_1:2.3.2-3 libaudit1_1:2.3.2-3 libblkid1_2.20.1-5.5 libbz2-1.0_1.0.6-5 libc-bin_2.17-97 libc-dev-bin_2.17-97 libc6_2.17-97 libc6-dev_2.17-97 libcap2_1:2.22-1.2 libcloog-isl4_0.18.1-3 libcomerr2_1.42.9-2 libcroco3_0.6.8-2 libdb5.1_5.1.29-6 libdbus-1-3_1.7.10-2 libdpkg-perl_1.17.5+rpi1 libexpat1_2.1.0-4 libffi6_3.0.13-12 libgc1c2_1:7.2d-6 libgcc-4.8-dev_4.8.2-14 libgcc1_1:4.8.2-14 libgcrypt11_1.5.3-3 libgdbm3_1.8.3-12 libglib2.0-0_2.36.4-1 libgmp10_2:5.1.3+dfsg-1 libgomp1_4.8.2-14 libgpg-error0_1.12-0.2 libisl10_0.12.1-2 libklibc_2.0.2-1+rpi1 libkmod2_16-2 liblocale-gettext-perl_1.05-7+b3 liblzma5_5.1.1alpha+20120614-2 libmagic1_1:5.14-2 libmount1_2.20.1-5.5 libmpc3_1.0.1-1 libmpfr4_3.1.2-1 libncurses5_5.9+20130608-1 libncursesw5_5.9+20130608-1 libnih-dbus1_1.0.3-4.2 libnih1_1.0.3-4.2 libpam-modules_1.1.3-9 libpam-modules-bin_1.1.3-9 libpam-runtime_1.1.3-9 libpam0g_1.1.3-9 libpcre3_1:8.31-2 libpipeline1_1.2.6-1 libprocps0_1:3.3.4-2 libpython-stdlib_2.7.5-5 libpython2.7-minimal_2.7.6-5 libpython2.7-stdlib_2.7.6-5 libreadline6_6.2+dfsg-0.1 libselinux1_2.2.2-1 libsemanage-common_2.2-1 libsemanage1_2.2-1 libsepol1_2.2-1 libsigsegv2_2.10-2 libslang2_2.2.4-16 libsqlite3-0_3.8.2-1 libss2_1.42.9-2 libssl1.0.0_1.0.1f-1 libstdc++-4.8-dev_4.8.2-14 libstdc++6_4.8.2-14 libtext-charwidth-perl_0.04-7+b3 libtext-iconv-perl_1.7-5+b3 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_2.3000-1 libtinfo5_5.9+20130608-1 libtool_2.4.2-1.6 libudev1_204-6 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-23.3 libustr-1.0-1_1.0.4-3 libuuid1_2.20.1-5.5 libxml2_2.9.1+dfsg1-3 libxml2-utils_2.9.1+dfsg1-3 libxslt1.1_1.1.28-2 linux-libc-dev_3.12.6-2+rpi1 login_1:4.1.5.1-1 lsb-base_4.1+Debian12+rpi1 m4_1.4.17-2 make_3.81-8.3 makedev_2.3.1-93 man-db_2.6.6-1 mawk_1.3.3-17 mime-support_3.54 mount_2.20.1-5.5 mountall_2.52 multiarch-support_2.17-97 ncurses-base_5.9+20130608-1 ncurses-bin_5.9+20130608-1 passwd_1:4.1.5.1-1 patch_2.7.1-4 perl_5.18.2-2 perl-base_5.18.2-2 perl-modules_5.18.2-2 plymouth_0.8.8-6+deb8u3 po-debconf_1.0.16+nmu2 procps_1:3.3.4-2 python_2.7.5-5 python-minimal_2.7.5-5 python2.7_2.7.6-5 python2.7-minimal_2.7.6-5 raspbian-archive-keyring_20120528.2 readline-common_6.2+dfsg-0.1 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-snp-sites-dummy_0.invalid.0 sed_4.2.2-3 sensible-utils_0.0.9 sgml-base_1.26+nmu4 sgml-data_2.0.9-1 sysv-rc_2.88dsf-45 sysvinit_2.88dsf-45 sysvinit-core_2.88dsf-45 sysvinit-utils_2.88dsf-45 tar_1.26+dfsg-8 tzdata_2013i-1 udev_204-6 util-linux_2.20.1-5.5 xml-core_0.13+nmu2 xsltproc_1.1.28-2 xz-utils_5.1.1alpha+20120614-2 zlib1g_1:1.2.8.dfsg-1 zlib1g-dev_1:1.2.8.dfsg-1
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
└──────────────────────────────────────────────────────────────────────────────┘
Unpack source
─────────────
gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Sat Feb 1 15:12:27 2014 UTC using RSA key ID D1C646D1
gpgv: Can't check signature: public key not found
dpkg-source: warning: failed to verify signature on ./snp-sites_1.5.0-1.dsc
dpkg-source: info: extracting snp-sites in snp-sites-1.5.0
dpkg-source: info: unpacking snp-sites_1.5.0.orig.tar.gz
dpkg-source: info: unpacking snp-sites_1.5.0-1.debian.tar.xz
Check disc space
────────────────
Sufficient free space for build
User Environment
────────────────
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LANG=en_GB.UTF-8
LC_ALL=POSIX
LOGNAME=root
MAIL=/var/mail/root
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
PWD=/root
SCHROOT_ALIAS_NAME=jessie-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=jessie-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=jessie-staging-armhf-sbuild-71caea05-4c93-4d2e-97e8-bc0627eed4c8
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
SHLVL=1
SSH_CLIENT=172.17.0.6 54878 22
SSH_CONNECTION=172.17.0.6 54878 172.17.2.3 22
SSH_TTY=/dev/pts/0
TERM=xterm
USER=buildd
_=/etc/init.d/buildd
dpkg-buildpackage
─────────────────
dpkg-buildpackage: source package snp-sites
dpkg-buildpackage: source version 1.5.0-1
dpkg-buildpackage: source distribution unstable
dpkg-source --before-build snp-sites-1.5.0
dpkg-buildpackage: host architecture armhf
fakeroot debian/rules clean
dh clean --with autoreconf
dh_testdir
dh_auto_clean
dh_autoreconf_clean
dh_clean
debian/rules build-arch
dh build-arch --with autoreconf
dh_testdir -a
dh_autoreconf -a
aclocal: warning: couldn't open directory 'm4': No such file or directory
libtoolize: putting auxiliary files in `.'.
libtoolize: copying file `./ltmain.sh'
libtoolize: putting macros in AC_CONFIG_MACRO_DIR, `m4'.
libtoolize: copying file `m4/libtool.m4'
libtoolize: copying file `m4/ltoptions.m4'
libtoolize: copying file `m4/ltsugar.m4'
libtoolize: copying file `m4/ltversion.m4'
libtoolize: copying file `m4/lt~obsolete.m4'
configure.ac:7: installing './compile'
configure.ac:7: installing './config.guess'
configure.ac:7: installing './config.sub'
configure.ac:2: installing './install-sh'
configure.ac:2: installing './missing'
src/Makefile.am:26: warning: source file '../tests/check-snp-sites.c' is in a subdirectory,
src/Makefile.am:26: but option 'subdir-objects' is disabled
automake: warning: possible forward-incompatibility.
automake: At least a source file is in a subdirectory, but the 'subdir-objects'
automake: automake option hasn't been enabled. For now, the corresponding output
automake: object file(s) will be placed in the top-level directory. However,
automake: this behaviour will change in future Automake versions: they will
automake: unconditionally cause object files to be placed in the same subdirectory
automake: of the corresponding sources.
automake: You are advised to start using 'subdir-objects' option throughout your
automake: project, to avoid future incompatibilities.
src/Makefile.am:26: warning: source file '../tests/helper-methods.c' is in a subdirectory,
src/Makefile.am:26: but option 'subdir-objects' is disabled
src/Makefile.am:26: warning: source file '../tests/run-all-tests.c' is in a subdirectory,
src/Makefile.am:26: but option 'subdir-objects' is disabled
src/Makefile.am: installing './depcomp'
parallel-tests: installing './test-driver'
dh_auto_configure -a
configure: WARNING: unrecognized options: --disable-maintainer-mode
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
checking for gawk... no
checking for mawk... mawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking build system type... arm-unknown-linux-gnueabihf
checking host system type... arm-unknown-linux-gnueabihf
checking how to print strings... printf
checking for style of include used by make... GNU
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking whether gcc understands -c and -o together... yes
checking dependency style of gcc... none
checking for a sed that does not truncate output... /bin/sed
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for fgrep... /bin/grep -F
checking for ld used by gcc... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
checking the name lister (/usr/bin/nm -B) interface... BSD nm
checking whether ln -s works... yes
checking the maximum length of command line arguments... 805306365
checking whether the shell understands some XSI constructs... yes
checking whether the shell understands "+="... yes
checking how to convert arm-unknown-linux-gnueabihf file names to arm-unknown-linux-gnueabihf format... func_convert_file_noop
checking how to convert arm-unknown-linux-gnueabihf file names to toolchain format... func_convert_file_noop
checking for /usr/bin/ld option to reload object files... -r
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for ar... ar
checking for archiver @FILE support... @
checking for strip... strip
checking for ranlib... ranlib
checking command to parse /usr/bin/nm -B output from gcc object... ok
checking for sysroot... no
checking for mt... mt
checking if mt is a manifest tool... no
checking how to run the C preprocessor... gcc -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for dlfcn.h... yes
checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -fPIC -DPIC
checking if gcc PIC flag -fPIC -DPIC works... yes
checking if gcc static flag -static works... yes
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes
checking whether -lc should be explicitly linked in... no
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking whether stripping libraries is possible... yes
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... yes
checking for gcc... (cached) gcc
checking whether we are using the GNU C compiler... (cached) yes
checking whether gcc accepts -g... (cached) yes
checking for gcc option to accept ISO C89... (cached) none needed
checking whether gcc understands -c and -o together... (cached) yes
checking dependency style of gcc... (cached) none
checking for g++... g++
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking dependency style of g++... none
checking how to run the C++ preprocessor... g++ -E
checking for ld used by g++... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes
checking for g++ option to produce PIC... -fPIC -DPIC
checking if g++ PIC flag -fPIC -DPIC works... yes
checking if g++ static flag -static works... yes
checking if g++ supports -c -o file.o... yes
checking if g++ supports -c -o file.o... (cached) yes
checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating src/Makefile
config.status: creating config.h
config.status: executing depfiles commands
config.status: executing libtool commands
configure: WARNING: unrecognized options: --disable-maintainer-mode
checking zlib.h usability... yes
checking zlib.h presence... yes
checking for zlib.h... yes
checking math.h usability... yes
checking math.h presence... yes
checking for math.h... yes
dh_auto_build -a
make[1]: Entering directory `/«PKGBUILDDIR»'
make all-recursive
make[2]: Entering directory `/«PKGBUILDDIR»'
Making all in src
make[3]: Entering directory `/«PKGBUILDDIR»/src'
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o alignment-file.lo alignment-file.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c alignment-file.c -fPIC -DPIC -o .libs/alignment-file.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c alignment-file.c -o alignment-file.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o vcf.lo vcf.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c vcf.c -fPIC -DPIC -o .libs/vcf.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c vcf.c -o vcf.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o phylib-of-snp-sites.lo phylib-of-snp-sites.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c phylib-of-snp-sites.c -fPIC -DPIC -o .libs/phylib-of-snp-sites.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c phylib-of-snp-sites.c -o phylib-of-snp-sites.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o snp-sites.lo snp-sites.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c snp-sites.c -fPIC -DPIC -o .libs/snp-sites.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c snp-sites.c -o snp-sites.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o fasta-of-snp-sites.lo fasta-of-snp-sites.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c fasta-of-snp-sites.c -fPIC -DPIC -o .libs/fasta-of-snp-sites.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c fasta-of-snp-sites.c -o fasta-of-snp-sites.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o parse-phylip.lo parse-phylip.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c parse-phylip.c -fPIC -DPIC -o .libs/parse-phylip.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c parse-phylip.c -o parse-phylip.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o string-cat.lo string-cat.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c string-cat.c -fPIC -DPIC -o .libs/string-cat.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c string-cat.c -o string-cat.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -version-info 1:0 -Wl,-z,relro -o libsnp-sites.la -rpath /usr/lib/arm-linux-gnueabihf alignment-file.lo vcf.lo phylib-of-snp-sites.lo snp-sites.lo fasta-of-snp-sites.lo parse-phylip.lo string-cat.lo
libtool: link: gcc -shared -fPIC -DPIC .libs/alignment-file.o .libs/vcf.o .libs/phylib-of-snp-sites.o .libs/snp-sites.o .libs/fasta-of-snp-sites.o .libs/parse-phylip.o .libs/string-cat.o -O2 -Wl,-z -Wl,relro -Wl,-soname -Wl,libsnp-sites.so.1 -o .libs/libsnp-sites.so.1.0.0
libtool: link: (cd ".libs" && rm -f "libsnp-sites.so.1" && ln -s "libsnp-sites.so.1.0.0" "libsnp-sites.so.1")
libtool: link: (cd ".libs" && rm -f "libsnp-sites.so" && ln -s "libsnp-sites.so.1.0.0" "libsnp-sites.so")
libtool: link: ar cru .libs/libsnp-sites.a alignment-file.o vcf.o phylib-of-snp-sites.o snp-sites.o fasta-of-snp-sites.o parse-phylip.o string-cat.o
libtool: link: ranlib .libs/libsnp-sites.a
libtool: link: ( cd ".libs" && rm -f "libsnp-sites.la" && ln -s "../libsnp-sites.la" "libsnp-sites.la" )
gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o main.o main.c
/bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wl,-z,relro -o snp-sites main.o -lm libsnp-sites.la -lz -lpthread -lrt
libtool: link: gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wl,-z -Wl,relro -o .libs/snp-sites main.o -lm ./.libs/libsnp-sites.so -lz -lpthread -lrt
make[3]: Leaving directory `/«PKGBUILDDIR»/src'
make[3]: Entering directory `/«PKGBUILDDIR»'
make[3]: Leaving directory `/«PKGBUILDDIR»'
make[2]: Leaving directory `/«PKGBUILDDIR»'
make[1]: Leaving directory `/«PKGBUILDDIR»'
dh_auto_test -a
make[1]: Entering directory `/«PKGBUILDDIR»'
Making check in src
make[2]: Entering directory `/«PKGBUILDDIR»/src'
make run-all-tests
make[3]: Entering directory `/«PKGBUILDDIR»/src'
gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -I../tests -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o run_all_tests-check-snp-sites.o `test -f '../tests/check-snp-sites.c' || echo './'`../tests/check-snp-sites.c
gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -I../tests -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o run_all_tests-helper-methods.o `test -f '../tests/helper-methods.c' || echo './'`../tests/helper-methods.c
gcc -DHAVE_CONFIG_H -I. -I.. -D_FORTIFY_SOURCE=2 -I../tests -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -c -o run_all_tests-run-all-tests.o `test -f '../tests/run-all-tests.c' || echo './'`../tests/run-all-tests.c
/bin/bash ../libtool --tag=CC --mode=link gcc -I../tests -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wl,-z,relro -o run-all-tests run_all_tests-check-snp-sites.o run_all_tests-helper-methods.o run_all_tests-run-all-tests.o -lm -lcheck libsnp-sites.la -lz -lpthread -lrt
libtool: link: gcc -I../tests -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wl,-z -Wl,relro -o .libs/run-all-tests run_all_tests-check-snp-sites.o run_all_tests-helper-methods.o run_all_tests-run-all-tests.o -lm -lcheck ./.libs/libsnp-sites.so -lz -lpthread -lrt
make[3]: Leaving directory `/«PKGBUILDDIR»/src'
make check-TESTS
make[3]: Entering directory `/«PKGBUILDDIR»/src'
make[4]: Entering directory `/«PKGBUILDDIR»/src'
PASS: run-all-tests
make[5]: Entering directory `/«PKGBUILDDIR»/src'
make[5]: Nothing to be done for `all'.
make[5]: Leaving directory `/«PKGBUILDDIR»/src'
============================================================================
Testsuite summary for snp-sites 1
============================================================================
# TOTAL: 1
# PASS: 1
# SKIP: 0
# XFAIL: 0
# FAIL: 0
# XPASS: 0
# ERROR: 0
============================================================================
make[4]: Leaving directory `/«PKGBUILDDIR»/src'
make[3]: Leaving directory `/«PKGBUILDDIR»/src'
make[2]: Leaving directory `/«PKGBUILDDIR»/src'
make[2]: Entering directory `/«PKGBUILDDIR»'
make[2]: Leaving directory `/«PKGBUILDDIR»'
make[1]: Leaving directory `/«PKGBUILDDIR»'
fakeroot debian/rules binary-arch
dh binary-arch --with autoreconf
dh_testroot -a
dh_prep -a
dh_auto_install -a
make[1]: Entering directory `/«PKGBUILDDIR»'
Making install in src
make[2]: Entering directory `/«PKGBUILDDIR»/src'
make[3]: Entering directory `/«PKGBUILDDIR»/src'
/bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf'
/bin/bash ../libtool --mode=install /usr/bin/install -c libsnp-sites.la '/«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf'
libtool: install: /usr/bin/install -c .libs/libsnp-sites.so.1.0.0 /«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf/libsnp-sites.so.1.0.0
libtool: install: (cd /«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libsnp-sites.so.1.0.0 libsnp-sites.so.1 || { rm -f libsnp-sites.so.1 && ln -s libsnp-sites.so.1.0.0 libsnp-sites.so.1; }; })
libtool: install: (cd /«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf && { ln -s -f libsnp-sites.so.1.0.0 libsnp-sites.so || { rm -f libsnp-sites.so && ln -s libsnp-sites.so.1.0.0 libsnp-sites.so; }; })
libtool: install: /usr/bin/install -c .libs/libsnp-sites.lai /«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf/libsnp-sites.la
libtool: install: /usr/bin/install -c .libs/libsnp-sites.a /«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf/libsnp-sites.a
libtool: install: chmod 644 /«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf/libsnp-sites.a
libtool: install: ranlib /«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf/libsnp-sites.a
libtool: install: warning: remember to run `libtool --finish /usr/lib/arm-linux-gnueabihf'
/bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/bin'
/bin/bash ../libtool --mode=install /usr/bin/install -c snp-sites '/«PKGBUILDDIR»/debian/tmp/usr/bin'
libtool: install: warning: `libsnp-sites.la' has not been installed in `/usr/lib/arm-linux-gnueabihf'
libtool: install: /usr/bin/install -c .libs/snp-sites /«PKGBUILDDIR»/debian/tmp/usr/bin/snp-sites
/bin/mkdir -p '/«PKGBUILDDIR»/debian/tmp/usr/include/snp-sites'
/usr/bin/install -c -m 644 alignment-file.h vcf.h phylib-of-snp-sites.h snp-sites.h fasta-of-snp-sites.h parse-phylip.h string-cat.h kseq.h '/«PKGBUILDDIR»/debian/tmp/usr/include/snp-sites'
make[3]: Leaving directory `/«PKGBUILDDIR»/src'
make[2]: Leaving directory `/«PKGBUILDDIR»/src'
make[2]: Entering directory `/«PKGBUILDDIR»'
make[3]: Entering directory `/«PKGBUILDDIR»'
make[3]: Nothing to be done for `install-exec-am'.
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/«PKGBUILDDIR»'
make[2]: Leaving directory `/«PKGBUILDDIR»'
make[1]: Leaving directory `/«PKGBUILDDIR»'
debian/rules override_dh_install
make[1]: Entering directory `/«PKGBUILDDIR»'
dh_install
d-shlibmove --commit \
--multiarch \
--movedev "debian/tmp/usr/include/snp-sites/*.h" usr/include/snp-sites \
debian/tmp/usr/lib/*/libsnp-sites.so
Library package automatic movement utility
set -e
install -d -m 755 debian/libsnp-sites1-dev/usr/lib/arm-linux-gnueabihf
install -d -m 755 debian/libsnp-sites1/usr/lib/arm-linux-gnueabihf
mv debian/tmp/usr/lib/arm-linux-gnueabihf/libsnp-sites.a debian/libsnp-sites1-dev/usr/lib/arm-linux-gnueabihf
mv debian/tmp/usr/lib/arm-linux-gnueabihf/libsnp-sites.la debian/libsnp-sites1-dev/usr/lib/arm-linux-gnueabihf || true
mv debian/tmp/usr/lib/arm-linux-gnueabihf/libsnp-sites.so debian/libsnp-sites1-dev/usr/lib/arm-linux-gnueabihf
mv /«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf/libsnp-sites.so.1 debian/libsnp-sites1/usr/lib/arm-linux-gnueabihf
mv /«PKGBUILDDIR»/debian/tmp/usr/lib/arm-linux-gnueabihf/libsnp-sites.so.1.0.0 debian/libsnp-sites1/usr/lib/arm-linux-gnueabihf
PKGDEV=libsnp-sites1-dev
PKGSHL=libsnp-sites1
install -d -m 755 debian/libsnp-sites1-dev/usr/include/snp-sites
mv debian/tmp/usr/include/snp-sites/*.h debian/libsnp-sites1-dev/usr/include/snp-sites
make[1]: Leaving directory `/«PKGBUILDDIR»'
dh_installdocs -a
dh_installchangelogs -a
debian/rules override_dh_installman
make[1]: Entering directory `/«PKGBUILDDIR»'
mkdir -p /«PKGBUILDDIR»/debian/man
a2x --no-xmllint -f manpage /«PKGBUILDDIR»/snp-sites.txt
mv /«PKGBUILDDIR»/snp-sites.1 /«PKGBUILDDIR»/debian/man
dh_installman --
make[1]: Leaving directory `/«PKGBUILDDIR»'
dh_perl -a
dh_link -a
dh_compress -a
dh_fixperms -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/snp-sites/usr/bin/snp-sites was not linked against libz.so.1 (it uses none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/snp-sites/usr/bin/snp-sites was not linked against libpthread.so.0 (it uses none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/snp-sites/usr/bin/snp-sites was not linked against librt.so.1 (it uses none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/snp-sites/usr/bin/snp-sites was not linked against libm.so.6 (it uses none of the library's symbols)
dpkg-shlibdeps: warning: symbol gzclose used by debian/libsnp-sites1/usr/lib/arm-linux-gnueabihf/libsnp-sites.so.1.0.0 found in none of the libraries
dpkg-shlibdeps: warning: symbol gzopen used by debian/libsnp-sites1/usr/lib/arm-linux-gnueabihf/libsnp-sites.so.1.0.0 found in none of the libraries
dpkg-shlibdeps: warning: symbol gzread used by debian/libsnp-sites1/usr/lib/arm-linux-gnueabihf/libsnp-sites.so.1.0.0 found in none of the libraries
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 libsnp-sites1: unused substitution variable ${misc:Pre-Depends}
dpkg-gencontrol: warning: Depends field of package libsnp-sites1-dev: unknown substitution variable ${shlibs:Depends}
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package `libsnp-sites1-dev' in `../libsnp-sites1-dev_1.5.0-1_armhf.deb'.
dpkg-deb: building package `snp-sites' in `../snp-sites_1.5.0-1_armhf.deb'.
dpkg-deb: building package `libsnp-sites1' in `../libsnp-sites1_1.5.0-1_armhf.deb'.
dpkg-genchanges -B -mRaspbian wandboard test autobuilder <root@raspbian.org> >../snp-sites_1.5.0-1_armhf.changes
dpkg-genchanges: arch-specific upload - not including arch-independent packages
dpkg-genchanges: binary-only upload - not including any source code
dpkg-source --after-build snp-sites-1.5.0
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
Build finished at 20140212-0558
Finished
────────
I: Built successfully
┌──────────────────────────────────────────────────────────────────────────────┐
│ Changes │
└──────────────────────────────────────────────────────────────────────────────┘
snp-sites_1.5.0-1_armhf.changes:
────────────────────────────────
Format: 1.8
Date: Sat, 01 Feb 2014 12:20:11 +0000
Source: snp-sites
Binary: snp-sites libsnp-sites1 libsnp-sites1-dev
Architecture: armhf
Version: 1.5.0-1
Distribution: jessie-staging
Urgency: low
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Jorge Soares <j.s.soares@gmail.com>
Description:
libsnp-sites1 - Shared libraries of the package snp-sites
libsnp-sites1-dev - Static libraries and header files for the package snp-sites
snp-sites - Binary code for the package snp-sites
Closes: 735596
Changes:
snp-sites (1.5.0-1) unstable; urgency=low
.
* New upstream version
Closes: #735596
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c1f1871b5aab04638f84e5dbcc04a9920def34a2 13072 libsnp-sites1-dev_1.5.0-1_armhf.deb
Checksums-Sha256:
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Files:
6151510bd58e54f35e8fab89d5c54926 6804 science optional snp-sites_1.5.0-1_armhf.deb
f9f9f9e77d52a0693feddec525636f37 9012 libs optional libsnp-sites1_1.5.0-1_armhf.deb
57181a9099c1c40c9ba6ce473e3becd6 13072 libdevel optional libsnp-sites1-dev_1.5.0-1_armhf.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
snp-sites_1.5.0-1_armhf.deb
───────────────────────────
new debian package, version 2.0.
size 6804 bytes: control archive=1091 bytes.
1159 bytes, 24 lines control
406 bytes, 6 lines md5sums
Package: snp-sites
Version: 1.5.0-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 11
Depends: libc6 (>= 2.4), libsnp-sites1, zlib1g (>= 1:1.1.4)
Section: science
Priority: optional
Homepage: https://github.com/sanger-pathogens/snp_sites
Description: Binary code for the package snp-sites
This program finds single nucleotide polymorphism (SNP) sites from
multi-fasta alignment input files (which might be compressed). Its
output can be in various widely used formats (Multi Fasta Alignment,
Vcf, phylip).
.
The software has been developed at the Wellcome Trust Sanger Institute.
.
A Single Nucleotide - polymorphism (SNP, pronounced snip; plural snips)
is a DNA sequence variation occurring when a Single Nucleotide — A, T, C
or G — in the genome (or other shared sequence) differs between members
of a biological species or paired chromosomes. For example, two
sequenced DNA fragments from different individuals, AAGCCTA to AAGCTTA,
contain a difference in a single nucleotide. In this case there are two
alleles. Almost all common SNPs have only two alleles.
drwxr-xr-x root/root 0 2014-02-12 05:58 ./
drwxr-xr-x root/root 0 2014-02-12 05:58 ./usr/
drwxr-xr-x root/root 0 2014-02-12 05:58 ./usr/bin/
-rwxr-xr-x root/root 5532 2014-02-12 05:58 ./usr/bin/snp-sites
drwxr-xr-x root/root 0 2014-02-12 05:58 ./usr/share/
drwxr-xr-x root/root 0 2014-02-12 05:58 ./usr/share/doc/
drwxr-xr-x root/root 0 2014-02-12 05:58 ./usr/share/doc/snp-sites/
-rw-r--r-- root/root 1183 2014-02-01 12:21 ./usr/share/doc/snp-sites/README.md
-rw-r--r-- root/root 378 2014-02-01 15:09 ./usr/share/doc/snp-sites/README.Debian
-rw-r--r-- root/root 2178 2014-02-01 15:09 ./usr/share/doc/snp-sites/copyright
-rw-r--r-- root/root 209 2014-02-01 15:09 ./usr/share/doc/snp-sites/changelog.Debian.gz
drwxr-xr-x root/root 0 2014-02-12 05:58 ./usr/share/man/
drwxr-xr-x root/root 0 2014-02-12 05:58 ./usr/share/man/man1/
-rw-r--r-- root/root 1134 2014-02-12 05:58 ./usr/share/man/man1/snp-sites.1.gz
libsnp-sites1_1.5.0-1_armhf.deb
───────────────────────────────
new debian package, version 2.0.
size 9012 bytes: control archive=931 bytes.
711 bytes, 19 lines control
238 bytes, 3 lines md5sums
135 bytes, 7 lines * postinst #!/bin/sh
132 bytes, 7 lines * postrm #!/bin/sh
29 bytes, 1 lines shlibs
Package: libsnp-sites1
Source: snp-sites
Version: 1.5.0-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 21
Depends: libc6 (>= 2.4)
Section: libs
Priority: optional
Homepage: https://github.com/sanger-pathogens/snp_sites
Description: Shared libraries of the package snp-sites
Snp-sites finds single nucleotide polymorphism (SNP) sites from
multi-fasta alignment input files (which might be compressed). Its
output can be in various widely used formats (Multi Fasta Alignment,
Vcf, phylip).
.
The software has been developed at the Wellcome Trust Sanger Institute.
.
This package contains the dynamic library uses by snp-sites.
drwxr-xr-x root/root 0 2014-02-12 05:58 ./
drwxr-xr-x root/root 0 2014-02-12 05:58 ./usr/
drwxr-xr-x root/root 0 2014-02-12 05:58 ./usr/lib/
drwxr-xr-x root/root 0 2014-02-12 05:58 ./usr/lib/arm-linux-gnueabihf/
-rw-r--r-- root/root 17860 2014-02-12 05:58 ./usr/lib/arm-linux-gnueabihf/libsnp-sites.so.1.0.0
drwxr-xr-x root/root 0 2014-02-12 05:58 ./usr/share/
drwxr-xr-x root/root 0 2014-02-12 05:58 ./usr/share/doc/
drwxr-xr-x root/root 0 2014-02-12 05:58 ./usr/share/doc/libsnp-sites1/
-rw-r--r-- root/root 2178 2014-02-01 15:09 ./usr/share/doc/libsnp-sites1/copyright
-rw-r--r-- root/root 209 2014-02-01 15:09 ./usr/share/doc/libsnp-sites1/changelog.Debian.gz
lrwxrwxrwx root/root 0 2014-02-12 05:58 ./usr/lib/arm-linux-gnueabihf/libsnp-sites.so.1 -> libsnp-sites.so.1.0.0
libsnp-sites1-dev_1.5.0-1_armhf.deb
───────────────────────────────────
new debian package, version 2.0.
size 13072 bytes: control archive=1167 bytes.
954 bytes, 24 lines control
958 bytes, 13 lines md5sums
Package: libsnp-sites1-dev
Source: snp-sites
Version: 1.5.0-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 42
Depends: libsnp-sites1 (= 1.5.0-1)
Conflicts: libsnp-sites-dev
Provides: libsnp-sites-dev
Section: libdevel
Priority: optional
Homepage: https://github.com/sanger-pathogens/snp_sites
Description: Static libraries and header files for the package snp-sites
Snp-sites finds single nucleotide polymorphism (SNP) sites from
multi-fasta alignment input files (which might be compressed). Its
output can be in various widely used formats (Multi Fasta Alignment,
Vcf, phylip).
.
The software has been developed at the Wellcome Trust Sanger Institute.
.
This package contains the development files to include snp-sites
into your own code. The library enables Python developers to make
snp-sites function calls (Python bindings) through the Boost Python
Library.
drwxr-xr-x root/root 0 2014-02-12 05:58 ./
drwxr-xr-x root/root 0 2014-02-12 05:58 ./usr/
drwxr-xr-x root/root 0 2014-02-12 05:58 ./usr/lib/
drwxr-xr-x root/root 0 2014-02-12 05:58 ./usr/lib/arm-linux-gnueabihf/
-rw-r--r-- root/root 983 2014-02-12 05:58 ./usr/lib/arm-linux-gnueabihf/libsnp-sites.la
-rw-r--r-- root/root 20170 2014-02-12 05:58 ./usr/lib/arm-linux-gnueabihf/libsnp-sites.a
drwxr-xr-x root/root 0 2014-02-12 05:58 ./usr/include/
drwxr-xr-x root/root 0 2014-02-12 05:58 ./usr/include/snp-sites/
-rw-r--r-- root/root 1845 2014-02-12 05:58 ./usr/include/snp-sites/alignment-file.h
-rw-r--r-- root/root 1076 2014-02-12 05:58 ./usr/include/snp-sites/fasta-of-snp-sites.h
-rw-r--r-- root/root 8809 2014-02-12 05:58 ./usr/include/snp-sites/kseq.h
-rw-r--r-- root/root 1035 2014-02-12 05:58 ./usr/include/snp-sites/parse-phylip.h
-rw-r--r-- root/root 1080 2014-02-12 05:58 ./usr/include/snp-sites/phylib-of-snp-sites.h
-rw-r--r-- root/root 1527 2014-02-12 05:58 ./usr/include/snp-sites/snp-sites.h
-rw-r--r-- root/root 1021 2014-02-12 05:58 ./usr/include/snp-sites/string-cat.h
-rw-r--r-- root/root 1732 2014-02-12 05:58 ./usr/include/snp-sites/vcf.h
drwxr-xr-x root/root 0 2014-02-12 05:58 ./usr/share/
drwxr-xr-x root/root 0 2014-02-12 05:58 ./usr/share/doc/
drwxr-xr-x root/root 0 2014-02-12 05:58 ./usr/share/doc/libsnp-sites1-dev/
-rw-r--r-- root/root 552 2014-02-01 15:09 ./usr/share/doc/libsnp-sites1-dev/README.Debian
-rw-r--r-- root/root 2178 2014-02-01 15:09 ./usr/share/doc/libsnp-sites1-dev/copyright
-rw-r--r-- root/root 209 2014-02-01 15:09 ./usr/share/doc/libsnp-sites1-dev/changelog.Debian.gz
lrwxrwxrwx root/root 0 2014-02-12 05:58 ./usr/lib/arm-linux-gnueabihf/libsnp-sites.so -> libsnp-sites.so.1.0.0
┌──────────────────────────────────────────────────────────────────────────────┐
│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
┌──────────────────────────────────────────────────────────────────────────────┐
│ Cleanup │
└──────────────────────────────────────────────────────────────────────────────┘
Purging /«BUILDDIR»
Not cleaning session: cloned chroot in use
┌──────────────────────────────────────────────────────────────────────────────┐
│ Summary │
└──────────────────────────────────────────────────────────────────────────────┘
Build Architecture: armhf
Build-Space: 5716
Build-Time: 132
Distribution: jessie-staging
Host Architecture: armhf
Install-Time: 333
Job: snp-sites_1.5.0-1
Machine Architecture: armhf
Package: snp-sites
Package-Time: 526
Source-Version: 1.5.0-1
Space: 5716
Status: successful
Version: 1.5.0-1
────────────────────────────────────────────────────────────────────────────────
Finished at 20140212-0558
Build needed 00:08:46, 5716k disc space