python-biom-format →
1.1.2-1 →
armhf → 2013-08-28 09:40:24
sbuild (Debian sbuild) 0.63.2 (18 Aug 2012) on testbuildd.raspbian.org
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║ python-biom-format 1.1.2-1 (armhf) 28 Aug 2013 09:25 ║
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Package: python-biom-format
Version: 1.1.2-1
Source Version: 1.1.2-1
Distribution: jessie-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'build/python-biom-format-8Sd1a1/python-biom-format-1.1.2' with '«PKGBUILDDIR»'
I: NOTICE: Log filtering will replace 'build/python-biom-format-8Sd1a1' with '«BUILDDIR»'
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/jessie-staging-armhf-sbuild-02553a23-9067-4d38-b8ae-2cb73355ef0e' with '«CHROOT»'
┌──────────────────────────────────────────────────────────────────────────────┐
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Get:4 http://172.17.0.1 jessie-staging/main armhf Packages [7935 kB]
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NOTICE: 'python-biom-format' packaging is maintained in the 'Svn' version control system at:
svn://anonscm.debian.org/debian-med/trunk/packages/python-biom-format/trunk/
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Get:1 http://172.17.0.1/private/ jessie-staging/main python-biom-format 1.1.2-1 (dsc) [1505 B]
Get:2 http://172.17.0.1/private/ jessie-staging/main python-biom-format 1.1.2-1 (tar) [5443 kB]
Get:3 http://172.17.0.1/private/ jessie-staging/main python-biom-format 1.1.2-1 (diff) [4772 B]
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Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-ScE4Gg/apt_archive/sbuild-build-depends-core-dummy.deb'.
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┌──────────────────────────────────────────────────────────────────────────────┐
│ Install core build dependencies (apt-based resolver) │
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debconf: delaying package configuration, since apt-utils is not installed
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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), python-all-dev, python-numpy, cython (>= 0.17), help2man, python-dateutil, python-cogent
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), python-all-dev, python-numpy, cython (>= 0.17), help2man, python-dateutil, python-cogent
dpkg-deb: building package `sbuild-build-depends-python-biom-format-dummy' in `/«BUILDDIR»/resolver-DJenFz/apt_archive/sbuild-build-depends-python-biom-format-dummy.deb'.
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┌──────────────────────────────────────────────────────────────────────────────┐
│ Install python-biom-format build dependencies (apt-based resolver) │
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Installing build dependencies
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The following extra packages will be installed:
bsdmainutils cython debhelper file gcc-4.8-base gettext gettext-base
groff-base help2man intltool-debian libasprintf0c2 libblas3 libcroco3
libexpat1 libexpat1-dev libffi6 libgcc1 libgfortran3 libglib2.0-0 libgomp1
liblapack3 libmagic1 libpipeline1 libpython-all-dev libpython-dev
libpython-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal
libpython2.7-stdlib libsqlite3-0 libssl1.0.0 libstdc++6 libunistring0
libxml2 man-db mime-support po-debconf python python-all python-all-dev
python-cogent python-dateutil python-dev python-minimal python-numpy
python-support python2.7 python2.7-dev python2.7-minimal
Suggested packages:
wamerican wordlist whois vacation dh-make gettext-doc groff less www-browser
libmail-box-perl python-doc python-tk python-cogent-doc python-numpy-doc
python-numpy-dbg python-nose gfortran python2.7-doc binfmt-support
Recommended packages:
curl wget lynx-cur autopoint libasprintf-dev libgettextpo-dev
libglib2.0-data shared-mime-info xml-core libmail-sendmail-perl
The following NEW packages will be installed:
bsdmainutils cython debhelper file gettext gettext-base groff-base help2man
intltool-debian libasprintf0c2 libblas3 libcroco3 libexpat1 libexpat1-dev
libffi6 libgfortran3 libglib2.0-0 liblapack3 libmagic1 libpipeline1
libpython-all-dev libpython-dev libpython-stdlib libpython2.7
libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libsqlite3-0
libssl1.0.0 libunistring0 libxml2 man-db mime-support po-debconf python
python-all python-all-dev python-cogent python-dateutil python-dev
python-minimal python-numpy python-support python2.7 python2.7-dev
python2.7-minimal sbuild-build-depends-python-biom-format-dummy
The following packages will be upgraded:
gcc-4.8-base libgcc1 libgomp1 libstdc++6
4 upgraded, 47 newly installed, 0 to remove and 49 not upgraded.
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Setting up python-minimal (2.7.5-4) ...
Setting up libpython-stdlib:armhf (2.7.5-4) ...
Setting up python (2.7.5-4) ...
Setting up python-support (1.0.15) ...
Setting up cython (0.19+git51-g3078752-1) ...
Setting up gettext (0.18.3-1) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu2) ...
Setting up debhelper (9.20130630) ...
Setting up help2man (1.43.3) ...
Setting up libblas3 (1.2.20110419-5) ...
update-alternatives: using /usr/lib/libblas/libblas.so.3 to provide /usr/lib/libblas.so.3 (libblas.so.3) in auto mode
Setting up liblapack3 (3.4.2+dfsg-1) ...
update-alternatives: using /usr/lib/lapack/liblapack.so.3 to provide /usr/lib/liblapack.so.3 (liblapack.so.3) in auto mode
Setting up libpython-dev:armhf (2.7.5-4) ...
Setting up libpython-all-dev:armhf (2.7.5-4) ...
Setting up python-all (2.7.5-4) ...
Setting up python2.7-dev (2.7.5-5) ...
Setting up python-dev (2.7.5-4) ...
Setting up python-all-dev (2.7.5-4) ...
Setting up python-dateutil (1.5+dfsg-0.1) ...
Setting up python-numpy (1:1.7.1-2) ...
Setting up python-cogent (1.5.3-2) ...
Setting up sbuild-build-depends-python-biom-format-dummy (0.invalid.0) ...
Processing triggers for libc-bin ...
ldconfig deferred processing now taking place
Processing triggers for python-support ...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build environment │
└──────────────────────────────────────────────────────────────────────────────┘
Kernel: Linux 3.9.8-imx5 armhf (armv7l)
Toolchain package versions: binutils_2.22-8 dpkg-dev_1.16.10 g++-4.6_4.6.4-2+rpi1 gcc-4.6_4.6.4-2+rpi1 libc6-dev_2.17-3 libstdc++6_4.8.1-6+rpi1 libstdc++6-4.6-dev_4.6.4-2+rpi1 linux-libc-dev_3.2.41-2+rpi1
Package versions: apt_0.9.7.8+rpi1 base-files_7.2 base-passwd_3.5.26 bash_4.2+dfsg-1 binutils_2.22-8 bsdmainutils_9.0.5 bsdutils_1:2.20.1-5.4 build-essential_11.6 bzip2_1.0.6-4 coreutils_8.13-3.5 cpio_2.11+dfsg-1 cpp_4:4.6.3-8 cpp-4.6_4.6.4-2+rpi1 cython_0.19+git51-g3078752-1 dash_0.5.7-3 debconf_1.5.50 debconf-i18n_1.5.50 debfoster_2.7-1.2 debhelper_9.20130630 debianutils_4.3.4 diffutils_1:3.2-8 dpkg_1.16.10 dpkg-dev_1.16.10 e2fslibs_1.42.5-1.1 e2fsprogs_1.42.5-1.1 fakeroot_1.18.4-2 file_1:5.14-2 findutils_4.4.2-5 g++_4:4.6.3-8 g++-4.6_4.6.4-2+rpi1 gcc_4:4.6.3-8 gcc-4.5-base_4.5.3-12+rpi1 gcc-4.6_4.6.4-2+rpi1 gcc-4.6-base_4.6.4-2+rpi1 gcc-4.7-base_4.7.3-4+rpi1 gcc-4.8-base_4.8.1-6+rpi1 gettext_0.18.3-1 gettext-base_0.18.3-1 gnupg_1.4.12-7 gpgv_1.4.12-7 grep_2.14-2 groff-base_1.22.2-3 gzip_1.5-1.1 help2man_1.43.3 hostname_3.12 initramfs-tools_0.112 initscripts_2.88dsf-41 insserv_1.14.0-5 intltool-debian_0.35.0+20060710.1 klibc-utils_2.0.1-3.1+rpi1 kmod_9-3 libacl1_2.2.52-1 libapt-pkg4.12_0.9.7.8+rpi1 libasprintf0c2_0.18.3-1 libattr1_1:2.4.47-1 libblas3_1.2.20110419-5 libblkid1_2.20.1-5.4 libbz2-1.0_1.0.6-4 libc-bin_2.17-3 libc-dev-bin_2.17-3 libc6_2.17-3 libc6-dev_2.17-3 libcap2_1:2.22-1.2 libclass-isa-perl_0.36-5 libcomerr2_1.42.5-1.1 libcroco3_0.6.8-2 libdb5.1_5.1.29-5 libdbus-1-3_1.6.10-1 libdpkg-perl_1.16.10 libexpat1_2.1.0-4 libexpat1-dev_2.1.0-4 libffi6_3.0.13-4 libgc1c2_1:7.1-9.1 libgcc1_1:4.8.1-6+rpi1 libgdbm3_1.8.3-12 libgfortran3_4.8.1-6+rpi1 libglib2.0-0_2.36.4-1 libgmp10_2:5.1.2+dfsg-1 libgomp1_4.8.1-6+rpi1 libklibc_2.0.1-3.1+rpi1 libkmod2_9-3 liblapack3_3.4.2+dfsg-1 liblocale-gettext-perl_1.05-7 liblzma5_5.1.1alpha+20120614-2 libmagic1_1:5.14-2 libmount1_2.20.1-5.4 libmpc2_0.9-4 libmpc3_1.0.1-1 libmpfr4_3.1.1-1 libncurses5_5.9+20130504-1 libncursesw5_5.9+20130504-1 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_1.2.4-1 libprocps0_1:3.3.4-2 libpython-all-dev_2.7.5-4 libpython-dev_2.7.5-4 libpython-stdlib_2.7.5-4 libpython2.7_2.7.5-5 libpython2.7-dev_2.7.5-5 libpython2.7-minimal_2.7.5-5 libpython2.7-stdlib_2.7.5-5 libreadline6_6.2+dfsg-0.1 libselinux1_2.1.13-2 libsemanage-common_2.1.10-2 libsemanage1_2.1.10-2 libsepol1_2.1.9-2 libslang2_2.2.4-15 libsqlite3-0_3.7.17-1 libss2_1.42.5-1.1 libssl1.0.0_1.0.1e-2+rpi1 libstdc++6_4.8.1-6+rpi1 libstdc++6-4.6-dev_4.6.4-2+rpi1 libswitch-perl_2.16-2 libtext-charwidth-perl_0.04-7 libtext-iconv-perl_1.7-5 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libtinfo5_5.9+20130504-1 libudev0_175-7.2 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-23.2 libustr-1.0-1_1.0.4-3 libuuid1_2.20.1-5.4 libxml2_2.9.1+dfsg1-3 linux-libc-dev_3.2.41-2+rpi1 login_1:4.1.5.1-1 lsb-base_4.1+Debian8+rpi1 make_3.81-8.2 makedev_2.3.1-93 man-db_2.6.5-2 mawk_1.3.3-17 mime-support_3.54 mount_2.20.1-5.4 multiarch-support_2.17-3 ncurses-base_5.9+20130504-1 ncurses-bin_5.9+20130504-1 passwd_1:4.1.5.1-1 patch_2.6.1-3 perl_5.14.2-21+rpi1 perl-base_5.14.2-21+rpi1 perl-modules_5.14.2-21+rpi1 plymouth_0.8.8-6 po-debconf_1.0.16+nmu2 procps_1:3.3.4-2 python_2.7.5-4 python-all_2.7.5-4 python-all-dev_2.7.5-4 python-cogent_1.5.3-2 python-dateutil_1.5+dfsg-0.1 python-dev_2.7.5-4 python-minimal_2.7.5-4 python-numpy_1:1.7.1-2 python-support_1.0.15 python2.7_2.7.5-5 python2.7-dev_2.7.5-5 python2.7-minimal_2.7.5-5 raspbian-archive-keyring_20120528.2 readline-common_6.2+dfsg-0.1 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-python-biom-format-dummy_0.invalid.0 sed_4.2.2-1 sensible-utils_0.0.7 sysv-rc_2.88dsf-41 sysvinit_2.88dsf-41 sysvinit-utils_2.88dsf-41 tar_1.26+dfsg-6 tzdata_2013c-2 udev_175-7.2 util-linux_2.20.1-5.4 xz-utils_5.1.1alpha+20120614-2 zlib1g_1:1.2.8.dfsg-1
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
└──────────────────────────────────────────────────────────────────────────────┘
Unpack source
─────────────
gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Sat Aug 17 12:41:08 2013 UTC using DSA key ID C09FD35A
gpgv: Can't check signature: public key not found
dpkg-source: warning: failed to verify signature on ./python-biom-format_1.1.2-1.dsc
dpkg-source: info: extracting python-biom-format in python-biom-format-1.1.2
dpkg-source: info: unpacking python-biom-format_1.1.2.orig.tar.gz
dpkg-source: info: unpacking python-biom-format_1.1.2-1.debian.tar.gz
Check disc space
────────────────
Sufficient free space for build
User Environment
────────────────
APT_CONFIG=/var/lib/sbuild/apt.conf
COLUMNS=80
CONSOLE=/dev/console
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
INIT_VERSION=sysvinit-2.88
LC_ALL=POSIX
LINES=24
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
PREVLEVEL=N
PWD=/
RUNLEVEL=2
SCHROOT_ALIAS_NAME=jessie-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=jessie-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=111
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=jessie-staging-armhf-sbuild-02553a23-9067-4d38-b8ae-2cb73355ef0e
SCHROOT_UID=106
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
previous=N
runlevel=2
dpkg-buildpackage
─────────────────
dpkg-buildpackage: source package python-biom-format
dpkg-buildpackage: source version 1.1.2-1
dpkg-source --before-build python-biom-format-1.1.2
dpkg-buildpackage: host architecture armhf
fakeroot debian/rules clean
dh clean --with python2 # ,sphinxdoc
dh_testdir
debian/rules override_dh_auto_clean
make[1]: Entering directory `/«PKGBUILDDIR»'
dh_auto_clean
running clean
'build/lib.linux-armv7l-2.7' does not exist -- can't clean it
'build/bdist.linux-armv7l' does not exist -- can't clean it
'build/scripts-2.7' does not exist -- can't clean it
find -name "._*" -exec rm -f '{}' ';' #Needed if you try to build from pristine tarball
rm -rf python-code/support-code/_sparsemat.cpp
make[1]: Leaving directory `/«PKGBUILDDIR»'
dh_clean
debian/rules build-arch
dh build-arch --with python2 # ,sphinxdoc
dh_testdir -a
dh_auto_configure -a
dh_auto_build -a
running build
running build_py
creating build
creating build/lib.linux-armv7l-2.7
creating build/lib.linux-armv7l-2.7/biom
copying python-code/biom/__init__.py -> build/lib.linux-armv7l-2.7/biom
copying python-code/biom/biomdb.py -> build/lib.linux-armv7l-2.7/biom
copying python-code/biom/csmat.py -> build/lib.linux-armv7l-2.7/biom
copying python-code/biom/dbdata.py -> build/lib.linux-armv7l-2.7/biom
copying python-code/biom/exception.py -> build/lib.linux-armv7l-2.7/biom
copying python-code/biom/parse.py -> build/lib.linux-armv7l-2.7/biom
copying python-code/biom/sparsedict.py -> build/lib.linux-armv7l-2.7/biom
copying python-code/biom/sparsemat.py -> build/lib.linux-armv7l-2.7/biom
copying python-code/biom/table.py -> build/lib.linux-armv7l-2.7/biom
copying python-code/biom/unit_test.py -> build/lib.linux-armv7l-2.7/biom
copying python-code/biom/util.py -> build/lib.linux-armv7l-2.7/biom
running build_ext
building 'biom._sparsemat' extension
creating build/temp.linux-armv7l-2.7
creating build/temp.linux-armv7l-2.7/python-code
creating build/temp.linux-armv7l-2.7/python-code/support-code
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -c python-code/support-code/_sparsemat.cpp -o build/temp.linux-armv7l-2.7/python-code/support-code/_sparsemat.o -std=c++0x
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default]
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -c python-code/support-code/sparsemat_lib.cpp -o build/temp.linux-armv7l-2.7/python-code/support-code/sparsemat_lib.o -std=c++0x
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default]
c++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -D_FORTIFY_SOURCE=2 -g -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wl,-z,relro -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-2.7/python-code/support-code/_sparsemat.o build/temp.linux-armv7l-2.7/python-code/support-code/sparsemat_lib.o -L/usr/lib/pymodules/python2.7/numpy -o build/lib.linux-armv7l-2.7/biom/_sparsemat.so
running build_scripts
creating build/scripts-2.7
copying and adjusting scripts/add_metadata.py -> build/scripts-2.7
copying and adjusting scripts/biom_validator.py -> build/scripts-2.7
copying and adjusting scripts/convert_biom.py -> build/scripts-2.7
copying and adjusting scripts/print_biom_python_config.py -> build/scripts-2.7
copying and adjusting scripts/print_biom_table_summary.py -> build/scripts-2.7
copying and adjusting scripts/subset_biom.py -> build/scripts-2.7
copying and adjusting scripts/test_biom_validator.py -> build/scripts-2.7
changing mode of build/scripts-2.7/add_metadata.py from 664 to 775
changing mode of build/scripts-2.7/biom_validator.py from 664 to 775
changing mode of build/scripts-2.7/convert_biom.py from 664 to 775
changing mode of build/scripts-2.7/print_biom_python_config.py from 664 to 775
changing mode of build/scripts-2.7/print_biom_table_summary.py from 664 to 775
changing mode of build/scripts-2.7/subset_biom.py from 664 to 775
changing mode of build/scripts-2.7/test_biom_validator.py from 664 to 775
dh_auto_test -a
fakeroot debian/rules binary-arch
dh binary-arch --with python2 # ,sphinxdoc
dh_testroot -a
dh_prep -a
dh_auto_install -a
running install
running build
running build_py
running build_ext
building 'biom._sparsemat' extension
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -c python-code/support-code/_sparsemat.cpp -o build/temp.linux-armv7l-2.7/python-code/support-code/_sparsemat.o -std=c++0x
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default]
arm-linux-gnueabihf-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -c python-code/support-code/sparsemat_lib.cpp -o build/temp.linux-armv7l-2.7/python-code/support-code/sparsemat_lib.o -std=c++0x
cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default]
c++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -D_FORTIFY_SOURCE=2 -g -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wl,-z,relro -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-2.7/python-code/support-code/_sparsemat.o build/temp.linux-armv7l-2.7/python-code/support-code/sparsemat_lib.o -L/usr/lib/pymodules/python2.7/numpy -o build/lib.linux-armv7l-2.7/biom/_sparsemat.so
running build_scripts
running install_lib
creating /«PKGBUILDDIR»/debian/python-biom-format/usr
creating /«PKGBUILDDIR»/debian/python-biom-format/usr/lib
creating /«PKGBUILDDIR»/debian/python-biom-format/usr/lib/python2.7
creating /«PKGBUILDDIR»/debian/python-biom-format/usr/lib/python2.7/dist-packages
creating /«PKGBUILDDIR»/debian/python-biom-format/usr/lib/python2.7/dist-packages/biom
copying build/lib.linux-armv7l-2.7/biom/__init__.py -> /«PKGBUILDDIR»/debian/python-biom-format/usr/lib/python2.7/dist-packages/biom
copying build/lib.linux-armv7l-2.7/biom/biomdb.py -> /«PKGBUILDDIR»/debian/python-biom-format/usr/lib/python2.7/dist-packages/biom
copying build/lib.linux-armv7l-2.7/biom/csmat.py -> /«PKGBUILDDIR»/debian/python-biom-format/usr/lib/python2.7/dist-packages/biom
copying build/lib.linux-armv7l-2.7/biom/dbdata.py -> /«PKGBUILDDIR»/debian/python-biom-format/usr/lib/python2.7/dist-packages/biom
copying build/lib.linux-armv7l-2.7/biom/exception.py -> /«PKGBUILDDIR»/debian/python-biom-format/usr/lib/python2.7/dist-packages/biom
copying build/lib.linux-armv7l-2.7/biom/parse.py -> /«PKGBUILDDIR»/debian/python-biom-format/usr/lib/python2.7/dist-packages/biom
copying build/lib.linux-armv7l-2.7/biom/sparsedict.py -> /«PKGBUILDDIR»/debian/python-biom-format/usr/lib/python2.7/dist-packages/biom
copying build/lib.linux-armv7l-2.7/biom/sparsemat.py -> /«PKGBUILDDIR»/debian/python-biom-format/usr/lib/python2.7/dist-packages/biom
copying build/lib.linux-armv7l-2.7/biom/table.py -> /«PKGBUILDDIR»/debian/python-biom-format/usr/lib/python2.7/dist-packages/biom
copying build/lib.linux-armv7l-2.7/biom/unit_test.py -> /«PKGBUILDDIR»/debian/python-biom-format/usr/lib/python2.7/dist-packages/biom
copying build/lib.linux-armv7l-2.7/biom/util.py -> /«PKGBUILDDIR»/debian/python-biom-format/usr/lib/python2.7/dist-packages/biom
copying build/lib.linux-armv7l-2.7/biom/_sparsemat.so -> /«PKGBUILDDIR»/debian/python-biom-format/usr/lib/python2.7/dist-packages/biom
running install_scripts
creating /«PKGBUILDDIR»/debian/python-biom-format/usr/bin
copying build/scripts-2.7/add_metadata.py -> /«PKGBUILDDIR»/debian/python-biom-format/usr/bin
copying build/scripts-2.7/biom_validator.py -> /«PKGBUILDDIR»/debian/python-biom-format/usr/bin
copying build/scripts-2.7/convert_biom.py -> /«PKGBUILDDIR»/debian/python-biom-format/usr/bin
copying build/scripts-2.7/print_biom_python_config.py -> /«PKGBUILDDIR»/debian/python-biom-format/usr/bin
copying build/scripts-2.7/print_biom_table_summary.py -> /«PKGBUILDDIR»/debian/python-biom-format/usr/bin
copying build/scripts-2.7/subset_biom.py -> /«PKGBUILDDIR»/debian/python-biom-format/usr/bin
copying build/scripts-2.7/test_biom_validator.py -> /«PKGBUILDDIR»/debian/python-biom-format/usr/bin
changing mode of /«PKGBUILDDIR»/debian/python-biom-format/usr/bin/add_metadata.py to 775
changing mode of /«PKGBUILDDIR»/debian/python-biom-format/usr/bin/biom_validator.py to 775
changing mode of /«PKGBUILDDIR»/debian/python-biom-format/usr/bin/convert_biom.py to 775
changing mode of /«PKGBUILDDIR»/debian/python-biom-format/usr/bin/print_biom_python_config.py to 775
changing mode of /«PKGBUILDDIR»/debian/python-biom-format/usr/bin/print_biom_table_summary.py to 775
changing mode of /«PKGBUILDDIR»/debian/python-biom-format/usr/bin/subset_biom.py to 775
changing mode of /«PKGBUILDDIR»/debian/python-biom-format/usr/bin/test_biom_validator.py to 775
running install_egg_info
Writing /«PKGBUILDDIR»/debian/python-biom-format/usr/lib/python2.7/dist-packages/biom_format-1.1.2.egg-info
debian/rules override_dh_install
make[1]: Entering directory `/«PKGBUILDDIR»'
dh_install
# remove language extension
rename 's/\.py$//;' /«PKGBUILDDIR»/debian/python-biom-format/usr/bin/*
make[1]: Leaving directory `/«PKGBUILDDIR»'
dh_installdocs -a
dh_installchangelogs -a
debian/rules override_dh_installman
make[1]: Entering directory `/«PKGBUILDDIR»'
# try to create man pages whereever possible
mkdir -p /«PKGBUILDDIR»/debian/python-biom-format/usr/share/man/man1
export PYTHONPATH=/«PKGBUILDDIR»/python-code ; \
help2man --no-info --version-string="1.1.2" \
--name="Script to add sample and/or observation metadata to BIOM-formatted files." \
/«PKGBUILDDIR»/debian/python-biom-format/usr/bin/add_metadata > /«PKGBUILDDIR»/debian/python-biom-format/usr/share/man/man1/add_metadata.1 ; \
help2man --no-info --version-string="1.1.2" \
--name='Test a biom file for adherence to the format specification' \
/«PKGBUILDDIR»/debian/python-biom-format/usr/bin/biom_validator > /«PKGBUILDDIR»/debian/python-biom-format/usr/share/man/man1/biom_validator.1 ; \
help2man --no-info --name='Script to convert biom formatted files' \
/«PKGBUILDDIR»/debian/python-biom-format/usr/bin/convert_biom > /«PKGBUILDDIR»/debian/python-biom-format/usr/share/man/man1/convert_biom.1 ; \
help2man --no-info --version-string="1.1.2" \
--name='summarize sample or observation data in BIOM-formatted files' \
/«PKGBUILDDIR»/debian/python-biom-format/usr/bin/print_biom_table_summary > /«PKGBUILDDIR»/debian/python-biom-format/usr/share/man/man1/print_biom_table_summary.1 ; \
help2man --no-info --version-string="1.1.2" \
--name='subset a BIOM file, over either the observations or samples' \
/«PKGBUILDDIR»/debian/python-biom-format/usr/bin/subset_biom > /«PKGBUILDDIR»/debian/python-biom-format/usr/share/man/man1/subset_biom.1
make[1]: Leaving directory `/«PKGBUILDDIR»'
dh_python2 -a
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/python-biom-format/usr/lib/python2.7/dist-packages/biom/_sparsemat.so was not linked against libpthread.so.0 (it uses 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: package python-biom-format: unused substitution variable ${python:Versions}
dpkg-gencontrol: warning: package python-biom-format: unused substitution variable ${python:Provides}
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package `python-biom-format' in `../python-biom-format_1.1.2-1_armhf.deb'.
dpkg-genchanges -B -mRaspbian nitrogen6x test autobuilder <root@raspbian.org> >../python-biom-format_1.1.2-1_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 python-biom-format-1.1.2
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
Build finished at 20130828-0939
Finished
────────
I: Built successfully
┌──────────────────────────────────────────────────────────────────────────────┐
│ Changes │
└──────────────────────────────────────────────────────────────────────────────┘
python-biom-format_1.1.2-1_armhf.changes:
─────────────────────────────────────────
Format: 1.8
Date: Thu, 15 Aug 2013 01:17:43 +0200
Source: python-biom-format
Binary: python-biom-format
Architecture: armhf
Version: 1.1.2-1
Distribution: jessie-staging
Urgency: low
Maintainer: Raspbian nitrogen6x test autobuilder <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
python-biom-format - Biological Observation Matrix (BIOM) format
Changes:
python-biom-format (1.1.2-1) unstable; urgency=low
.
* debian/watch:
- Enable '+dfsg' suffix in Debian versions
- Fix download location
- anonscm in Vcs fields
* debian/control:
- cme fix dpkg-control
* Remove workaround cython problem which was needed when 1.0.0 was
released because cython at this time was suffering from #682652
* debian/rules:
- use help2man to create manpages
Checksums-Sha1:
13037979c92ac8614705b55e3d0f7cf410954e1f 88190 python-biom-format_1.1.2-1_armhf.deb
Checksums-Sha256:
5a331387a3e163b605283cfaada3713ded8fd305fa9a6eb1a06463c091807a86 88190 python-biom-format_1.1.2-1_armhf.deb
Files:
85f5cba64d47bffefe0d7f3767922021 88190 python optional python-biom-format_1.1.2-1_armhf.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
python-biom-format_1.1.2-1_armhf.deb
────────────────────────────────────
new debian package, version 2.0.
size 88190 bytes: control archive=2024 bytes.
1600 bytes, 29 lines control
1952 bytes, 28 lines md5sums
168 bytes, 9 lines * postinst #!/bin/sh
273 bytes, 14 lines * prerm #!/bin/sh
Package: python-biom-format
Version: 1.1.2-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 335
Depends: libc6 (>= 2.4), libgcc1 (>= 1:4.4.0), libstdc++6 (>= 4.4.0), python (>= 2.7), python (<< 2.8), python-dateutil, python-cogent
Section: python
Priority: optional
Homepage: http://biom-format.org/
Description: Biological Observation Matrix (BIOM) format
The BIOM file format (canonically pronounced biome) is designed to be a
general-use format for representing biological sample by observation
contingency tables. BIOM is a recognized standard for the Earth
Microbiome Project and is a Genomics Standards Consortium candidate
project.
.
The BIOM format is designed for general use in broad areas of
comparative -omics. For example, in marker-gene surveys, the primary use
of this format is to represent OTU tables: the observations in this case
are OTUs and the matrix contains counts corresponding to the number of
times each OTU is observed in each sample. With respect to metagenome
data, this format would be used to represent metagenome tables: the
observations in this case might correspond to SEED subsystems, and the
matrix would contain counts corresponding to the number of times each
subsystem is observed in each metagenome. Similarly, with respect to
genome data, this format may be used to represent a set of genomes: the
observations in this case again might correspond to SEED subsystems, and
the counts would correspond to the number of times each subsystem is
observed in each genome.
drwxr-xr-x root/root 0 2013-08-28 09:39 ./
drwxr-xr-x root/root 0 2013-08-28 09:39 ./usr/
drwxr-xr-x root/root 0 2013-08-28 09:39 ./usr/lib/
drwxr-xr-x root/root 0 2013-08-28 09:39 ./usr/lib/python2.7/
drwxr-xr-x root/root 0 2013-08-28 09:39 ./usr/lib/python2.7/dist-packages/
drwxr-xr-x root/root 0 2013-08-28 09:39 ./usr/lib/python2.7/dist-packages/biom/
-rw-r--r-- root/root 82316 2013-08-28 09:39 ./usr/lib/python2.7/dist-packages/biom/_sparsemat.so
drwxr-xr-x root/root 0 2013-08-28 09:39 ./usr/lib/pyshared/
drwxr-xr-x root/root 0 2013-08-28 09:39 ./usr/lib/pyshared/python2.7/
drwxr-xr-x root/root 0 2013-08-28 09:39 ./usr/lib/pyshared/python2.7/biom/
drwxr-xr-x root/root 0 2013-08-28 09:39 ./usr/bin/
-rwxr-xr-x root/root 6684 2013-08-28 09:39 ./usr/bin/add_metadata
-rwxr-xr-x root/root 11006 2013-08-28 09:39 ./usr/bin/biom_validator
-rwxr-xr-x root/root 9426 2013-08-28 09:39 ./usr/bin/convert_biom
-rwxr-xr-x root/root 2538 2013-08-28 09:39 ./usr/bin/print_biom_python_config
-rwxr-xr-x root/root 4665 2013-08-28 09:39 ./usr/bin/print_biom_table_summary
-rwxr-xr-x root/root 4051 2013-08-28 09:39 ./usr/bin/subset_biom
-rwxr-xr-x root/root 19256 2013-08-28 09:39 ./usr/bin/test_biom_validator
drwxr-xr-x root/root 0 2013-08-28 09:39 ./usr/share/
drwxr-xr-x root/root 0 2013-08-28 09:39 ./usr/share/doc/
drwxr-xr-x root/root 0 2013-08-28 09:39 ./usr/share/doc/python-biom-format/
-rw-r--r-- root/root 1456 2013-08-14 23:19 ./usr/share/doc/python-biom-format/copyright
-rw-r--r-- root/root 488 2013-08-17 12:38 ./usr/share/doc/python-biom-format/changelog.Debian.gz
-rw-r--r-- root/root 1302 2013-01-28 23:21 ./usr/share/doc/python-biom-format/changelog.gz
drwxr-xr-x root/root 0 2013-08-28 09:39 ./usr/share/man/
drwxr-xr-x root/root 0 2013-08-28 09:39 ./usr/share/man/man1/
-rw-r--r-- root/root 904 2013-08-28 09:39 ./usr/share/man/man1/add_metadata.1.gz
-rw-r--r-- root/root 681 2013-08-28 09:39 ./usr/share/man/man1/biom_validator.1.gz
-rw-r--r-- root/root 996 2013-08-28 09:39 ./usr/share/man/man1/convert_biom.1.gz
-rw-r--r-- root/root 647 2013-08-28 09:39 ./usr/share/man/man1/print_biom_table_summary.1.gz
-rw-r--r-- root/root 878 2013-08-28 09:39 ./usr/share/man/man1/subset_biom.1.gz
drwxr-xr-x root/root 0 2013-08-28 09:39 ./usr/share/pyshared/
drwxr-xr-x root/root 0 2013-08-28 09:39 ./usr/share/pyshared/biom/
-rw-r--r-- root/root 4941 2013-01-28 23:21 ./usr/share/pyshared/biom/__init__.py
-rw-r--r-- root/root 7677 2013-01-28 23:21 ./usr/share/pyshared/biom/biomdb.py
-rw-r--r-- root/root 25060 2013-01-28 23:21 ./usr/share/pyshared/biom/csmat.py
-rw-r--r-- root/root 5218 2013-01-28 23:21 ./usr/share/pyshared/biom/dbdata.py
-rw-r--r-- root/root 660 2013-01-28 23:21 ./usr/share/pyshared/biom/exception.py
-rw-r--r-- root/root 33136 2013-01-28 23:21 ./usr/share/pyshared/biom/parse.py
-rw-r--r-- root/root 10619 2013-01-28 23:21 ./usr/share/pyshared/biom/sparsedict.py
-rw-r--r-- root/root 12841 2013-01-28 23:21 ./usr/share/pyshared/biom/sparsemat.py
-rw-r--r-- root/root 74603 2013-01-28 23:21 ./usr/share/pyshared/biom/table.py
-rw-r--r-- root/root 9545 2013-01-28 23:21 ./usr/share/pyshared/biom/unit_test.py
-rw-r--r-- root/root 8242 2013-01-28 23:21 ./usr/share/pyshared/biom/util.py
-rw-r--r-- root/root 691 2013-08-28 09:39 ./usr/share/pyshared/biom_format-1.1.2.egg-info
lrwxrwxrwx root/root 0 2013-08-28 09:39 ./usr/lib/python2.7/dist-packages/biom/util.py -> ../../../../share/pyshared/biom/util.py
lrwxrwxrwx root/root 0 2013-08-28 09:39 ./usr/lib/python2.7/dist-packages/biom/unit_test.py -> ../../../../share/pyshared/biom/unit_test.py
lrwxrwxrwx root/root 0 2013-08-28 09:39 ./usr/lib/python2.7/dist-packages/biom/table.py -> ../../../../share/pyshared/biom/table.py
lrwxrwxrwx root/root 0 2013-08-28 09:39 ./usr/lib/python2.7/dist-packages/biom/sparsemat.py -> ../../../../share/pyshared/biom/sparsemat.py
lrwxrwxrwx root/root 0 2013-08-28 09:39 ./usr/lib/python2.7/dist-packages/biom/sparsedict.py -> ../../../../share/pyshared/biom/sparsedict.py
lrwxrwxrwx root/root 0 2013-08-28 09:39 ./usr/lib/python2.7/dist-packages/biom/parse.py -> ../../../../share/pyshared/biom/parse.py
lrwxrwxrwx root/root 0 2013-08-28 09:39 ./usr/lib/python2.7/dist-packages/biom/exception.py -> ../../../../share/pyshared/biom/exception.py
lrwxrwxrwx root/root 0 2013-08-28 09:39 ./usr/lib/python2.7/dist-packages/biom/dbdata.py -> ../../../../share/pyshared/biom/dbdata.py
lrwxrwxrwx root/root 0 2013-08-28 09:39 ./usr/lib/python2.7/dist-packages/biom/csmat.py -> ../../../../share/pyshared/biom/csmat.py
lrwxrwxrwx root/root 0 2013-08-28 09:39 ./usr/lib/python2.7/dist-packages/biom/biomdb.py -> ../../../../share/pyshared/biom/biomdb.py
lrwxrwxrwx root/root 0 2013-08-28 09:39 ./usr/lib/python2.7/dist-packages/biom/__init__.py -> ../../../../share/pyshared/biom/__init__.py
lrwxrwxrwx root/root 0 2013-08-28 09:39 ./usr/lib/python2.7/dist-packages/biom_format-1.1.2.egg-info -> ../../../share/pyshared/biom_format-1.1.2.egg-info
lrwxrwxrwx root/root 0 2013-08-28 09:39 ./usr/lib/pyshared/python2.7/biom/_sparsemat.so -> ../../../python2.7/dist-packages/biom/_sparsemat.so
┌──────────────────────────────────────────────────────────────────────────────┐
│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
┌──────────────────────────────────────────────────────────────────────────────┐
│ Cleanup │
└──────────────────────────────────────────────────────────────────────────────┘
Purging /«BUILDDIR»
Not cleaning session: cloned chroot in use
┌──────────────────────────────────────────────────────────────────────────────┐
│ Summary │
└──────────────────────────────────────────────────────────────────────────────┘
Build Architecture: armhf
Build-Space: 36192
Build-Time: 124
Distribution: jessie-staging
Host Architecture: armhf
Install-Time: 611
Job: python-biom-format_1.1.2-1
Machine Architecture: armhf
Package: python-biom-format
Package-Time: 848
Source-Version: 1.1.2-1
Space: 36192
Status: successful
Version: 1.1.2-1
────────────────────────────────────────────────────────────────────────────────
Finished at 20130828-0939
Build needed 00:14:08, 36192k disc space