=> Building biology/py-biom-format build started at Tue Oct 4 21:53:40 PDT 2016 port directory: /usr/ports/biology/py-biom-format building for: DragonFly pkgbox64.dragonflybsd.org 4.7-DEVELOPMENT DragonFly v4.7.0.78.g7d868-DEVELOPMENT #7: Mon Aug 1 22:25:32 PDT 2016 root@pkgbox64.dragonflybsd.org:/usr/obj/usr/src/sys/X86_64_GENERIC x86_64 maintained by: jrm@FreeBSD.org ident warning: no id keywords in /build/boomdata/data/.m/bleeding-edge-default/ref/../04//usr/ports/biology/py-biom-format/Makefile Makefile ident: Poudriere version: 3.1-pre Host OSVERSION: 400700 Jail OSVERSION: 400702 !!! Jail is newer than host. (Jail: 400702, Host: 400700) !!! !!! This is not supported. !!! !!! Host kernel must be same or newer than jail. !!! !!! Expect build failures. !!! ---Begin Environment--- STATUS=1 SAVED_TERM=screen MASTERMNT=/build/boomdata/data/.m/bleeding-edge-default/ref PATH=/usr/local/libexec/poudriere:/sbin:/bin:/usr/sbin:/usr/bin:/usr/pkg/bin:/usr/pkg/sbin:/usr/games:/usr/local/sbin:/usr/local/bin:/usr/pkg/xorg/bin:/usr/X11R6/bin:/root/bin:/sbin:/usr/sbin POUDRIERE_BUILD_TYPE=bulk PKGNAME=py27-biom-format-2.1.5_1 OLDPWD=/root/boom PWD=/build/boomdata/data/.m/bleeding-edge-default/ref/.p/pool MASTERNAME=bleeding-edge-default TERM=cons25 USER=root HOME=/root POUDRIERE_VERSION=3.1-pre LOCALBASE=/usr/local PACKAGE_BUILDING=yes ---End Environment--- ---Begin OPTIONS List--- ---End OPTIONS List--- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- PYTHON="/usr/local/bin/python2.7" XDG_DATA_HOME=/wrkdirs/biology/py-biom-format XDG_CONFIG_HOME=/wrkdirs/biology/py-biom-format HOME=/wrkdirs/biology/py-biom-format TMPDIR="/tmp" SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCVER=gcc50 --End CONFIGURE_ENV-- --MAKE_ENV-- XDG_DATA_HOME=/wrkdirs/biology/py-biom-format XDG_CONFIG_HOME=/wrkdirs/biology/py-biom-format HOME=/wrkdirs/biology/py-biom-format TMPDIR="/tmp" NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES CCVER=gcc50 LDSHARED="cc -shared" PYTHONDONTWRITEBYTECODE= PYTHONOPTIMIZE= PREFIX=/usr/local LOCALBASE=/usr/local LIBDIR="/usr/lib" NOPROFILE=1 CC="cc" CFLAGS="-pipe -O2 -fno-strict-aliasing" CPP="cpp" CPPFLAGS="" LDFLAGS="" LIBS="" CXX="c++" CXXFLAGS=" -pipe -O2 -fno-strict-aliasing" MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 444" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" --End MAKE_ENV-- --PLIST_SUB-- PYTHON_INCLUDEDIR=include/python2.7 PYTHON_LIBDIR=lib/python2.7 PYTHON_PLATFORM=dragonfly4 PYTHON_SITELIBDIR=lib/python2.7/site-packages PYTHON_VER=2.7 PYTHON_VERSION=python2.7 OSREL=4.7 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local PORTDOCS="" PORTEXAMPLES="" LIB32DIR=lib PROFILE="@comment " DOCSDIR="share/doc/biom-format" EXAMPLESDIR="share/examples/biom-format" DATADIR="share/biom-format" WWWDIR="www/biom-format" ETCDIR="etc/biom-format" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/biom-format DOCSDIR=/usr/local/share/doc/biom-format EXAMPLESDIR=/usr/local/share/examples/biom-format WWWDIR=/usr/local/www/biom-format ETCDIR=/usr/local/etc/biom-format --End SUB_LIST-- ---Begin make.conf--- USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs NO_BACKUP=yes USE_PACKAGE_DEPENDS=yes PKG_CREATE_VERBOSE=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORT_DBDIR=/options PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles MAKE_JOBS_NUMBER=5 ---End make.conf--- =================================================== ===> License BSD3CLAUSE accepted by the user =========================================================================== =================================================== ===> py27-biom-format-2.1.5_1 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.8.7_3.txz Installing pkg-1.8.7_3... Extracting pkg-1.8.7_3: .......... done ===> py27-biom-format-2.1.5_1 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of py27-biom-format-2.1.5_1 =========================================================================== =================================================== =========================================================================== =================================================== ===> License BSD3CLAUSE accepted by the user ===> Fetching all distfiles required by py27-biom-format-2.1.5_1 for building =========================================================================== =================================================== ===> License BSD3CLAUSE accepted by the user ===> Fetching all distfiles required by py27-biom-format-2.1.5_1 for building => SHA256 Checksum OK for biocore-biom-format-2.1.5_GH0.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> License BSD3CLAUSE accepted by the user ===> Fetching all distfiles required by py27-biom-format-2.1.5_1 for building ===> Extracting for py27-biom-format-2.1.5_1 => SHA256 Checksum OK for biocore-biom-format-2.1.5_GH0.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> Patching for py27-biom-format-2.1.5_1 =========================================================================== =================================================== ===> py27-biom-format-2.1.5_1 depends on file: /usr/local/lib/python2.7/site-packages/numpy/core/numeric.py - not found ===> Installing existing package /packages/All/py27-numpy-1.11.1,1.txz Installing py27-numpy-1.11.1,1... `-- Installing python27-2.7.12... | `-- Installing expat-2.2.0... | `-- Extracting expat-2.2.0: .......... done | `-- Installing readline-6.3.8... | | `-- Installing indexinfo-0.2.5... | | `-- Extracting indexinfo-0.2.5: .... done | | `-- Installing ncurses-6.0_5... | | `-- Extracting ncurses-6.0_5: .......... done | `-- Extracting readline-6.3.8: .......... done | `-- Installing libffi-3.2.1... | `-- Extracting libffi-3.2.1: .......... done | `-- Installing libressl-2.4.3... | `-- Extracting libressl-2.4.3: .......... done | `-- Installing gettext-runtime-0.19.8.1... | `-- Extracting gettext-runtime-0.19.8.1: .......... done `-- Extracting python27-2.7.12: .......... done `-- Installing py27-setuptools27-23.1.0... `-- Extracting py27-setuptools27-23.1.0: .......... done `-- Installing lapack-3.5.0... | `-- Installing blas-3.5.0_3... | | `-- Installing gcc5-5.4.0... | | `-- Installing mpc-1.0.3... | | | `-- Installing gmp-5.1.3_3... | | | `-- Extracting gmp-5.1.3_3: .......... done | | | `-- Installing mpfr-3.1.5... | | | `-- Extracting mpfr-3.1.5: .......... done | | `-- Extracting mpc-1.0.3: ...... done | | `-- Installing binutils-2.27_4,1... | | `-- Extracting binutils-2.27_4,1: .......... done | | `-- Extracting gcc5-5.4.0: .......... done | `-- Extracting blas-3.5.0_3: ....... done `-- Extracting lapack-3.5.0: .......... done `-- Installing openblas-0.2.18_1,1... `-- Extracting openblas-0.2.18_1,1: ......... done `-- Installing suitesparse-4.0.2_4... `-- Extracting suitesparse-4.0.2_4: .......... done `-- Installing cblas-1.0_4... `-- Extracting cblas-1.0_4: ......... done Extracting py27-numpy-1.11.1,1: .......... done Message from ncurses-6.0_5: ===> NOTICE: The ncurses port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port Message from python27-2.7.12: =========================================================================== Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: bsddb databases/py-bsddb gdbm databases/py-gdbm sqlite3 databases/py-sqlite3 tkinter x11-toolkits/py-tkinter =========================================================================== Message from gcc5-5.4.0: To ensure binaries built with this toolchain find appropriate versions of the necessary run-time libraries, you may want to link using -Wl,-rpath=/usr/local/lib/gcc5 For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens transparently. Message from cblas-1.0_4: ===> NOTICE: The cblas port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port ===> py27-biom-format-2.1.5_1 depends on file: /usr/local/lib/python2.7/site-packages/numpy/core/numeric.py - found ===> Returning to build of py27-biom-format-2.1.5_1 ===> py27-biom-format-2.1.5_1 depends on package: py27-setuptools27>0 - found ===> py27-biom-format-2.1.5_1 depends on file: /usr/local/bin/python2.7 - found =========================================================================== =================================================== =========================================================================== =================================================== ===> Configuring for py27-biom-format-2.1.5_1 running config =========================================================================== =================================================== ===> Building for py27-biom-format-2.1.5_1 running build running build_py creating build creating build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7 creating build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom copying biom/table.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom copying biom/__init__.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom copying biom/parse.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom copying biom/exception.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom copying biom/err.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom copying biom/util.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom creating build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests copying tests/test_util.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests copying tests/test_table.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests copying tests/test_parse.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests copying tests/test_err.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests copying tests/__init__.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests creating build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli copying biom/cli/table_normalizer.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli copying biom/cli/table_validator.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli copying biom/cli/table_converter.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli copying biom/cli/installation_informer.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli copying biom/cli/metadata_adder.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli copying biom/cli/__init__.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli copying biom/cli/table_head.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli copying biom/cli/table_summarizer.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli copying biom/cli/util.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli copying biom/cli/uc_processor.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli copying biom/cli/table_subsetter.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli creating build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_cli copying tests/test_cli/test_validate_table.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_cli copying tests/test_cli/test_uc_processor.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_cli copying tests/test_cli/test_table_normalizer.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_cli copying tests/test_cli/test_table_converter.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_cli copying tests/test_cli/test_summarize_table.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_cli copying tests/test_cli/test_subset_table.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_cli copying tests/test_cli/test_show_install_info.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_cli copying tests/test_cli/test_add_metadata.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_cli copying tests/test_cli/__init__.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_cli running egg_info creating biom_format.egg-info writing requirements to biom_format.egg-info/requires.txt writing biom_format.egg-info/PKG-INFO writing top-level names to biom_format.egg-info/top_level.txt writing dependency_links to biom_format.egg-info/dependency_links.txt writing entry points to biom_format.egg-info/entry_points.txt writing manifest file 'biom_format.egg-info/SOURCES.txt' reading manifest file 'biom_format.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' no previously-included directories found matching 'docs/_build' warning: no previously-included files matching '*.pyc' found anywhere in distribution warning: no previously-included files matching '*.pyo' found anywhere in distribution warning: no previously-included files matching '.git' found anywhere in distribution writing manifest file 'biom_format.egg-info/SOURCES.txt' copying biom/_filter.c -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom copying biom/_filter.pyx -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom copying biom/_subsample.c -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom copying biom/_subsample.pyx -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom copying biom/_transform.c -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom copying biom/_transform.pyx -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom running build_ext building 'biom._filter' extension creating build/temp.dragonfly-4.7-DEVELOPMENT-x86_64-2.7 creating build/temp.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom cc -DNDEBUG -pipe -O2 -fno-strict-aliasing -fPIC -I/usr/local/lib/python2.7/site-packages/numpy/core/include -I/usr/local/include/python2.7 -c biom/_filter.c -o build/temp.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/_filter.o In file included from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1777:0, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4, from biom/_filter.c:258: /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it by " \ ^ cc -shared -pipe -O2 -fno-strict-aliasing build/temp.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/_filter.o -L/usr/local/lib -lpython2.7 -o build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/_filter.so building 'biom._transform' extension cc -DNDEBUG -pipe -O2 -fno-strict-aliasing -fPIC -I/usr/local/lib/python2.7/site-packages/numpy/core/include -I/usr/local/include/python2.7 -c biom/_transform.c -o build/temp.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/_transform.o In file included from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1777:0, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4, from biom/_transform.c:258: /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it by " \ ^ cc -shared -pipe -O2 -fno-strict-aliasing build/temp.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/_transform.o -L/usr/local/lib -lpython2.7 -o build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/_transform.so building 'biom._subsample' extension cc -DNDEBUG -pipe -O2 -fno-strict-aliasing -fPIC -I/usr/local/lib/python2.7/site-packages/numpy/core/include -I/usr/local/include/python2.7 -c biom/_subsample.c -o build/temp.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/_subsample.o In file included from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1777:0, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4, from biom/_subsample.c:258: /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it by " \ ^ cc -shared -pipe -O2 -fno-strict-aliasing build/temp.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/_subsample.o -L/usr/local/lib -lpython2.7 -o build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/_subsample.so =========================================================================== =================================================== ===> py27-biom-format-2.1.5_1 depends on file: /usr/local/lib/python2.7/site-packages/numpy/core/numeric.py - found ===> py27-biom-format-2.1.5_1 depends on package: py27-h5py>=2.6.0 - not found ===> Installing existing package /packages/All/py27-h5py-2.6.0.txz Installing py27-h5py-2.6.0... `-- Installing hdf5-1.10.0... | `-- Installing hdf-szip-2.1_2... | `-- Extracting hdf-szip-2.1_2: ........ done `-- Extracting hdf5-1.10.0: .......... done `-- Installing py27-six-1.10.0... `-- Extracting py27-six-1.10.0: .......... done Extracting py27-h5py-2.6.0: .......... done ===> py27-biom-format-2.1.5_1 depends on package: py27-h5py>=2.6.0 - found ===> Returning to build of py27-biom-format-2.1.5_1 ===> py27-biom-format-2.1.5_1 depends on package: py27-click>=6.6 - not found ===> Installing existing package /packages/All/py27-click-6.6.txz Installing py27-click-6.6... Extracting py27-click-6.6: .......... done ===> py27-biom-format-2.1.5_1 depends on package: py27-click>=6.6 - found ===> Returning to build of py27-biom-format-2.1.5_1 ===> py27-biom-format-2.1.5_1 depends on package: py27-future>=0.15.2 - not found ===> Installing existing package /packages/All/py27-future-0.15.2_1.txz Installing py27-future-0.15.2_1... Extracting py27-future-0.15.2_1: .......... done ===> py27-biom-format-2.1.5_1 depends on package: py27-future>=0.15.2 - found ===> Returning to build of py27-biom-format-2.1.5_1 ===> py27-biom-format-2.1.5_1 depends on package: py27-scipy>=0.16.1 - not found ===> Installing existing package /packages/All/py27-scipy-0.16.1.txz Installing py27-scipy-0.16.1... `-- Installing swig13-1.3.40_1... `-- Extracting swig13-1.3.40_1: .......... done Extracting py27-scipy-0.16.1: .......... done Message from swig13-1.3.40_1: ===> NOTICE: The swig13 port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port ===> py27-biom-format-2.1.5_1 depends on package: py27-scipy>=0.16.1 - found ===> Returning to build of py27-biom-format-2.1.5_1 ===> py27-biom-format-2.1.5_1 depends on package: py27-setuptools27>0 - found ===> py27-biom-format-2.1.5_1 depends on file: /usr/local/bin/python2.7 - found ===> py27-biom-format-2.1.5_1 depends on package: py27-pyqi>=0.2.0 - not found ===> Installing existing package /packages/All/py27-pyqi-0.3.2.txz Installing py27-pyqi-0.3.2... `-- Installing postgresql93-client-9.3.14_1... | `-- Installing perl5-5.20.3_15... | `-- Extracting perl5-5.20.3_15: .......... done `-- Extracting postgresql93-client-9.3.14_1: .......... done Extracting py27-pyqi-0.3.2: .......... done Message from perl5-5.20.3_15: The /usr/bin/perl symlink has been removed starting with Perl 5.20. For shebangs, you should either use: #!/usr/local/bin/perl or #!/usr/bin/env perl The first one will only work if you have a /usr/local/bin/perl, the second will work as long as perl is in PATH. Message from postgresql93-client-9.3.14_1: The PostgreSQL port has a collection of "side orders": postgresql-docs For all of the html documentation p5-Pg A perl5 API for client access to PostgreSQL databases. postgresql-tcltk If you want tcl/tk client support. postgresql-jdbc For Java JDBC support. postgresql-odbc For client access from unix applications using ODBC as access method. Not needed to access unix PostgreSQL servers from Win32 using ODBC. See below. ruby-postgres, py-PyGreSQL For client access to PostgreSQL databases using the ruby & python languages. postgresql-plperl, postgresql-pltcl & postgresql-plruby For using perl5, tcl & ruby as procedural languages. postgresql-contrib Lots of contributed utilities, postgresql functions and datatypes. There you find pg_standby, pgcrypto and many other cool things. etc... ===> py27-biom-format-2.1.5_1 depends on package: py27-pyqi>=0.2.0 - found ===> Returning to build of py27-biom-format-2.1.5_1 =========================================================================== =================================================== ===> Staging for py27-biom-format-2.1.5_1 ===> Generating temporary packing list running install running build running build_py running egg_info writing requirements to biom_format.egg-info/requires.txt writing biom_format.egg-info/PKG-INFO writing top-level names to biom_format.egg-info/top_level.txt writing dependency_links to biom_format.egg-info/dependency_links.txt writing entry points to biom_format.egg-info/entry_points.txt reading manifest file 'biom_format.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' no previously-included directories found matching 'docs/_build' warning: no previously-included files matching '*.pyc' found anywhere in distribution warning: no previously-included files matching '*.pyo' found anywhere in distribution warning: no previously-included files matching '.git' found anywhere in distribution writing manifest file 'biom_format.egg-info/SOURCES.txt' running build_ext running install_lib creating /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7 creating /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages creating /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_err.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests creating /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_cli/test_subset_table.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_cli/test_table_converter.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_cli/test_summarize_table.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_cli/test_validate_table.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_cli/test_show_install_info.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_cli/test_table_normalizer.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_cli/__init__.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_cli/test_add_metadata.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_cli/test_uc_processor.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_parse.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_util.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/test_table.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/tests/__init__.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests creating /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/_transform.so -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/_subsample.so -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/_subsample.c -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/_subsample.pyx -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/err.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/parse.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/_filter.pyx -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/_transform.c -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/table.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/util.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/__init__.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/_filter.c -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/_transform.pyx -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/exception.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom creating /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli/installation_informer.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli/metadata_adder.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli/uc_processor.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli/table_converter.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli/table_summarizer.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli/table_subsetter.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli/table_validator.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli/util.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli/table_normalizer.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli/table_head.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/cli/__init__.py -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/biom/_filter.so -> /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_err.py to test_err.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_cli/test_subset_table.py to test_subset_table.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_cli/test_table_converter.py to test_table_converter.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_cli/test_summarize_table.py to test_summarize_table.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_cli/test_validate_table.py to test_validate_table.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_cli/test_show_install_info.py to test_show_install_info.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_cli/test_table_normalizer.py to test_table_normalizer.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_cli/__init__.py to __init__.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_cli/test_add_metadata.py to test_add_metadata.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_cli/test_uc_processor.py to test_uc_processor.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_parse.py to test_parse.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_util.py to test_util.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/test_table.py to test_table.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/tests/__init__.py to __init__.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/err.py to err.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/parse.py to parse.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/table.py to table.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/util.py to util.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/__init__.py to __init__.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/exception.py to exception.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli/installation_informer.py to installation_informer.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli/metadata_adder.py to metadata_adder.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli/uc_processor.py to uc_processor.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli/table_converter.py to table_converter.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli/table_summarizer.py to table_summarizer.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli/table_subsetter.py to table_subsetter.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli/table_validator.py to table_validator.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli/util.py to util.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli/table_normalizer.py to table_normalizer.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli/table_head.py to table_head.pyc byte-compiling /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/cli/__init__.py to __init__.pyc writing byte-compilation script '/tmp/tmpQINm7L.py' /usr/local/bin/python2.7 -O /tmp/tmpQINm7L.py removing /tmp/tmpQINm7L.py running install_egg_info Copying biom_format.egg-info to /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom_format-2.1.5-py2.7.egg-info running install_scripts Installing biom script to /wrkdirs/biology/py-biom-format/stage/usr/local/bin writing list of installed files to '/wrkdirs/biology/py-biom-format/.PLIST.pymodtmp' /usr/bin/strip /wrkdirs/biology/py-biom-format/stage/usr/local/lib/python2.7/site-packages/biom/*.so ====> Compressing man pages (compress-man) =========================================================================== =================================================== ===> Building package for py27-biom-format-2.1.5_1 file sizes/checksums [112]: .. done packing files [112]: .. done packing directories [0]: . done =========================================================================== => Cleaning up wrkdir ===> Cleaning for py27-biom-format-2.1.5_1 build of biology/py-biom-format ended at Tue Oct 4 21:55:17 PDT 2016 build time: 00:01:37