=> Building science/py-scikit-sparse build started at Sun Mar 12 18:06:21 PDT 2017 port directory: /usr/ports/science/py-scikit-sparse building for: DragonFly pkgbox64.dragonflybsd.org 4.7-DEVELOPMENT DragonFly v4.7.0.1380.gb4315f-DEVELOPMENT #0: Fri Mar 3 17:20:21 PST 2017 root@pkgbox64.dragonflybsd.org:/usr/obj/usr/src/sys/X86_64_GENERIC x86_64 maintained by: yuri@rawbw.com ident warning: no id keywords in /build/boomdata/data/.m/Release48-default/ref/../07//usr/ports/science/py-scikit-sparse/Makefile Makefile ident: Poudriere version: 3.1-pre Host OSVERSION: 400713 Jail OSVERSION: 400713 ---Begin Environment--- STATUS=1 SAVED_TERM=screen MASTERMNT=/build/boomdata/data/.m/Release48-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-scikit-sparse-0.2_2 OLDPWD=/root/boom PWD=/build/boomdata/data/.m/Release48-default/ref/.p/pool MASTERNAME=Release48-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-- F77="gfortran5" FC="gfortran5" FFLAGS="-O -Wl,-rpath=/usr/local/lib/gcc5" FCFLAGS="-Wl,-rpath=/usr/local/lib/gcc5" PYTHON="/usr/local/bin/python2.7" XDG_DATA_HOME=/wrkdirs/science/py-scikit-sparse XDG_CONFIG_HOME=/wrkdirs/science/py-scikit-sparse HOME=/wrkdirs/science/py-scikit-sparse TMPDIR="/tmp" SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCVER=gcc50 --End CONFIGURE_ENV-- --MAKE_ENV-- F77="gfortran5" FC="gfortran5" FFLAGS="-O -Wl,-rpath=/usr/local/lib/gcc5" FCFLAGS="-Wl,-rpath=/usr/local/lib/gcc5" XDG_DATA_HOME=/wrkdirs/science/py-scikit-sparse XDG_CONFIG_HOME=/wrkdirs/science/py-scikit-sparse HOME=/wrkdirs/science/py-scikit-sparse TMPDIR="/tmp" NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES CCVER=gcc50 ADDR2LINE="/usr/local/bin/addr2line" AR="/usr/local/bin/ar" AS="/usr/local/bin/as" CPPFILT="/usr/local/bin/c++filt" GPROF="/usr/local/bin/gprof" LD="/usr/local/bin/ld" NM="/usr/local/bin/nm" OBJCOPY="/usr/local/bin/objcopy" OBJDUMP="/usr/local/bin/objdump" RANLIB="/usr/local/bin/ranlib" READELF="/usr/local/bin/readelf" SIZE="/usr/local/bin/size" STRINGS="/usr/local/bin/strings" LDSHARED="cc -shared" PYTHONDONTWRITEBYTECODE= PYTHONOPTIMIZE= PREFIX=/usr/local LOCALBASE=/usr/local LIBDIR="/usr/lib" NOPROFILE=1 CC="cc" CFLAGS="-pipe -I/usr/local/include -O2 -fno-strict-aliasing" CPP="cpp" CPPFLAGS="" LDFLAGS=" -shared -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin" LIBS="" CXX="c++" CXXFLAGS=" -pipe -I/usr/local/include -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_PYOEXTENSION=pyo PYTHON_SITELIBDIR=lib/python2.7/site-packages PYTHON_SUFFIX=27 PYTHON_VER=2.7 PYTHON_VERSION=python2.7 PYTHON2="" PYTHON3="@comment " OSREL=4.7 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local PORTDOCS="" PORTEXAMPLES="" LIB32DIR=lib PROFILE="@comment " DOCSDIR="share/doc/scikit-sparse" EXAMPLESDIR="share/examples/scikit-sparse" DATADIR="share/scikit-sparse" WWWDIR="www/scikit-sparse" ETCDIR="etc/scikit-sparse" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/scikit-sparse DOCSDIR=/usr/local/share/doc/scikit-sparse EXAMPLESDIR=/usr/local/share/examples/scikit-sparse WWWDIR=/usr/local/www/scikit-sparse ETCDIR=/usr/local/etc/scikit-sparse --End SUB_LIST-- ---Begin make.conf--- 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 BSD2CLAUSE accepted by the user =========================================================================== =================================================== ===> py27-scikit-sparse-0.2_2 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.9.4_1.txz Installing pkg-1.9.4_1... Extracting pkg-1.9.4_1: .......... done ===> py27-scikit-sparse-0.2_2 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of py27-scikit-sparse-0.2_2 =========================================================================== =================================================== =========================================================================== =================================================== ===> License BSD2CLAUSE accepted by the user ===> Fetching all distfiles required by py27-scikit-sparse-0.2_2 for building =========================================================================== =================================================== ===> License BSD2CLAUSE accepted by the user ===> Fetching all distfiles required by py27-scikit-sparse-0.2_2 for building => SHA256 Checksum OK for scikits.sparse-0.2.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> License BSD2CLAUSE accepted by the user ===> Fetching all distfiles required by py27-scikit-sparse-0.2_2 for building ===> Extracting for py27-scikit-sparse-0.2_2 => SHA256 Checksum OK for scikits.sparse-0.2.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> Patching for py27-scikit-sparse-0.2_2 ===> Applying ports patches for py27-scikit-sparse-0.2_2 =========================================================================== =================================================== ===> py27-scikit-sparse-0.2_2 depends on file: /usr/local/lib/python2.7/site-packages/numpy/core/numeric.py - not found ===> Installing existing package /packages/All/py27-numpy-1.11.2_1,1.txz Installing py27-numpy-1.11.2_1,1... `-- Installing python27-2.7.13_1... | `-- Installing expat-2.2.0_1... | `-- Extracting expat-2.2.0_1: .......... done | `-- Installing readline-6.3.8... | | `-- Installing indexinfo-0.2.6... | | `-- Extracting indexinfo-0.2.6: .... done | | `-- Installing ncurses-6.0_3... | | `-- Extracting ncurses-6.0_3: .......... done | `-- Extracting readline-6.3.8: .......... done | `-- Installing libffi-3.2.1... | `-- Extracting libffi-3.2.1: .......... done | `-- Installing libressl-2.4.5... | `-- Extracting libressl-2.4.5: .......... done | `-- Installing gettext-runtime-0.19.8.1_1... | `-- Extracting gettext-runtime-0.19.8.1_1: .......... done `-- Extracting python27-2.7.13_1: .......... done `-- Installing py27-setuptools27-32.1.0... `-- Extracting py27-setuptools27-32.1.0: .......... done `-- Installing lapack-3.5.0_1... | `-- 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_1... | | | `-- Extracting mpfr-3.1.5_1: .......... done | | `-- Extracting mpc-1.0.3: ...... done | | `-- Installing binutils-2.27_5,1... | | `-- Extracting binutils-2.27_5,1: .......... done | | `-- Extracting gcc5-5.4.0: .......... done | `-- Extracting blas-3.5.0_3: ....... done `-- Extracting lapack-3.5.0_1: .......... done `-- Installing openblas-0.2.19,1... `-- Extracting openblas-0.2.19,1: ......... done `-- Installing suitesparse-4.0.2_5... `-- Extracting suitesparse-4.0.2_5: .......... done `-- Installing cblas-1.0_5... `-- Extracting cblas-1.0_5: ......... done Extracting py27-numpy-1.11.2_1,1: .......... done Message from ncurses-6.0_3: ===> 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 python27-2.7.13_1: =========================================================================== 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_5: ===> 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-scikit-sparse-0.2_2 depends on file: /usr/local/lib/python2.7/site-packages/numpy/core/numeric.py - found ===> Returning to build of py27-scikit-sparse-0.2_2 ===> py27-scikit-sparse-0.2_2 depends on file: /usr/local/lib/python2.7/site-packages/scipy/version.py - not found ===> Installing existing package /packages/All/py27-scipy-0.18.1_1.txz Installing py27-scipy-0.18.1_1... `-- Installing swig13-1.3.40_1... `-- Extracting swig13-1.3.40_1: .......... done Extracting py27-scipy-0.18.1_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-scikit-sparse-0.2_2 depends on file: /usr/local/lib/python2.7/site-packages/scipy/version.py - found ===> Returning to build of py27-scikit-sparse-0.2_2 ===> py27-scikit-sparse-0.2_2 depends on executable: gfortran5 - found ===> py27-scikit-sparse-0.2_2 depends on package: py27-setuptools27>0 - found ===> py27-scikit-sparse-0.2_2 depends on file: /usr/local/bin/python2.7 - found ===> py27-scikit-sparse-0.2_2 depends on package: cython>0 - not found ===> Installing existing package /packages/All/cython-0.25.2.txz Installing cython-0.25.2... Extracting cython-0.25.2: .......... done ===> py27-scikit-sparse-0.2_2 depends on package: cython>0 - found ===> Returning to build of py27-scikit-sparse-0.2_2 ===> py27-scikit-sparse-0.2_2 depends on executable: gfortran5 - found ===> py27-scikit-sparse-0.2_2 depends on package: py27-setuptools27>0 - found ===> py27-scikit-sparse-0.2_2 depends on file: /usr/local/bin/python2.7 - found ===> py27-scikit-sparse-0.2_2 depends on file: /usr/local/bin/as - found =========================================================================== =================================================== ===> py27-scikit-sparse-0.2_2 depends on shared library: libumfpack.so - found (/usr/local/lib/libumfpack.so) =========================================================================== =================================================== ===> Configuring for py27-scikit-sparse-0.2_2 running config =========================================================================== =================================================== ===> Building for py27-scikit-sparse-0.2_2 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/scikits copying scikits/__init__.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/scikits creating build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/scikits/sparse copying scikits/sparse/__init__.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/scikits/sparse copying scikits/sparse/test_cholmod.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/scikits/sparse running build_ext cythoning scikits/sparse/cholmod.pyx to scikits/sparse/cholmod.c warning: scikits/sparse/cholmod.pyx:32:8: 'stdlib' is deprecated, use 'libc.stdlib' warning: scikits/sparse/cholmod.pyx:33:8: 'python' is deprecated, use 'cpython' warning: scikits/sparse/cholmod.pyx:129:13: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. warning: scikits/sparse/cholmod.pyx:129:18: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. warning: scikits/sparse/cholmod.pyx:131:13: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. warning: scikits/sparse/cholmod.pyx:131:19: Non-trivial type declarators in shared declaration (e.g. mix of pointers and values). Each pointer declaration should be on its own line. building 'scikits.sparse.cholmod' extension creating build/temp.dragonfly-4.7-DEVELOPMENT-x86_64-2.7 creating build/temp.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/scikits creating build/temp.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/scikits/sparse cc -DNDEBUG -pipe -I/usr/local/include -O2 -fno-strict-aliasing -fPIC -I/usr/local/lib/python2.7/site-packages/numpy/core/include -I/usr/local/include/python2.7 -c scikits/sparse/cholmod.c -o build/temp.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/scikits/sparse/cholmod.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 scikits/sparse/cholmod.c:436: /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 " \ ^ scikits/sparse/cholmod.c: In function '__pyx_pf_7scikits_6sparse_7cholmod_6Common___cinit__': scikits/sparse/cholmod.c:3439:39: warning: assignment from incompatible pointer type [-Wincompatible-pointer-types] __pyx_v_self->_common.error_handler = ((void (*)(int, char *, int, char *))__pyx_f_7scikits_6sparse_7cholmod__error_handler); ^ cc -shared -shared -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -pipe -I/usr/local/include -O2 -fno-strict-aliasing build/temp.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/scikits/sparse/cholmod.o -L/usr/local/lib -lcholmod -lpython2.7 -o build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/scikits/sparse/cholmod.so =========================================================================== =================================================== ===> py27-scikit-sparse-0.2_2 depends on file: /usr/local/lib/python2.7/site-packages/numpy/core/numeric.py - found ===> py27-scikit-sparse-0.2_2 depends on file: /usr/local/lib/python2.7/site-packages/scipy/version.py - found ===> py27-scikit-sparse-0.2_2 depends on executable: gfortran5 - found ===> py27-scikit-sparse-0.2_2 depends on package: py27-setuptools27>0 - found ===> py27-scikit-sparse-0.2_2 depends on file: /usr/local/bin/python2.7 - found =========================================================================== =================================================== ===> Staging for py27-scikit-sparse-0.2_2 ===> Generating temporary packing list running install running build running build_py running build_ext skipping 'scikits/sparse/cholmod.c' Cython extension (up-to-date) running install_lib Skipping installation of /wrkdirs/science/py-scikit-sparse/stage/usr/local/lib/python2.7/site-packages/scikits/__init__.py (namespace package) copying scikits/sparse/test_cholmod.py -> /wrkdirs/science/py-scikit-sparse/stage/usr/local/lib/python2.7/site-packages/scikits/sparse copying scikits/sparse/__init__.py -> /wrkdirs/science/py-scikit-sparse/stage/usr/local/lib/python2.7/site-packages/scikits/sparse copying scikits/sparse/cholmod.so -> /wrkdirs/science/py-scikit-sparse/stage/usr/local/lib/python2.7/site-packages/scikits/sparse byte-compiling /wrkdirs/science/py-scikit-sparse/stage/usr/local/lib/python2.7/site-packages/scikits/sparse/test_cholmod.py to test_cholmod.pyc byte-compiling /wrkdirs/science/py-scikit-sparse/stage/usr/local/lib/python2.7/site-packages/scikits/sparse/__init__.py to __init__.pyc writing byte-compilation script '/tmp/tmpgHOrsp.py' /usr/local/bin/python2.7 -O /tmp/tmpgHOrsp.py removing /tmp/tmpgHOrsp.py running install_egg_info running egg_info writing requirements to scikits.sparse.egg-info/requires.txt writing scikits.sparse.egg-info/PKG-INFO writing namespace_packages to scikits.sparse.egg-info/namespace_packages.txt writing top-level names to scikits.sparse.egg-info/top_level.txt writing dependency_links to scikits.sparse.egg-info/dependency_links.txt reading manifest file 'scikits.sparse.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'COPYING' no previously-included directories found matching 'doc/_build' warning: no previously-included files matching '*~' found anywhere in distribution warning: no previously-included files matching '*.so' found anywhere in distribution warning: no previously-included files matching '*.pyc' found anywhere in distribution writing manifest file 'scikits.sparse.egg-info/SOURCES.txt' Copying scikits.sparse.egg-info to /wrkdirs/science/py-scikit-sparse/stage/usr/local/lib/python2.7/site-packages/scikits.sparse-0.2-py2.7.egg-info Installing /wrkdirs/science/py-scikit-sparse/stage/usr/local/lib/python2.7/site-packages/scikits.sparse-0.2-py2.7-nspkg.pth running install_scripts writing list of installed files to '/wrkdirs/science/py-scikit-sparse/.PLIST.pymodtmp' ====> Compressing man pages (compress-man) =========================================================================== =================================================== ===> Building package for py27-scikit-sparse-0.2_2 file sizes/checksums [18]: . done packing files [18]: . done packing directories [0]: . done =========================================================================== => Cleaning up wrkdir ===> Cleaning for py27-scikit-sparse-0.2_2 build of science/py-scikit-sparse ended at Sun Mar 12 18:07:20 PDT 2017 build time: 00:00:59