=> Bootstrap dependency digest>=20010302: found digest-20160304 ===> Building for py27-Scientific-2.8.1nb7 (cd /var/pkgsrc/work/math/py-Scientific/work/ScientificPython-2.8.1/ && /usr/bin/env NETCDF_PREFIX=/usr/pkg USETOOLS=no PTHREAD_CFLAGS=\ -pthread\ -D_THREAD_SAFE PTHREAD_LDFLAGS=\ -pthread PTHREAD_LIBS=-lpthread\ -lrt PTHREADBASE=/usr DL_CFLAGS= DL_LDFLAGS= DL_LIBS= PYTHON=/usr/pkg/bin/python2.7 CC=clang CFLAGS=-O2\ -I/usr/pkg/include\ -I/usr/include CPPFLAGS=-I/usr/pkg/include\ -I/usr/include CXX=clang++ CXXFLAGS=-O2\ -I/usr/pkg/include\ -I/usr/include COMPILER_RPATH_FLAG=-Wl,-R F77=f77 FC=f77 FFLAGS=-O LANG=C LC_ALL=C LC_COLLATE=C LC_CTYPE=C LC_MESSAGES=C LC_MONETARY=C LC_NUMERIC=C LC_TIME=C LDFLAGS=-L/usr/pkg/lib\ -Wl,-R/usr/pkg/lib\ -L/usr/lib\ -Wl,-R/usr/lib LINKER_RPATH_FLAG=-R PATH=/var/pkgsrc/work/math/py-Scientific/work/.cwrapper/bin:/var/pkgsrc/work/math/py-Scientific/work/.buildlink/bin:/var/pkgsrc/work/math/py-Scientific/work/.tools/bin:/usr/pkg/bin:/usr/pkg/sbin:/usr/pkg/bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin:/usr/pkg/bin:/usr/pkg/bin PREFIX=/usr/pkg MAKELEVEL=0 CONFIG_SITE= PKG_SYSCONFDIR=/usr/pkg/etc CXXCPP=clang\ -E HOME=/var/pkgsrc/work/math/py-Scientific/work/.home CWRAPPERS_CONFIG_DIR=/var/pkgsrc/work/math/py-Scientific/work/.cwrapper/config CPP=clang\ -E LOCALBASE=/usr/pkg X11BASE=/usr/pkg PKGMANDIR=man PKGINFODIR=info PKGGNUDIR=gnu/ MAKECONF=/dev/null OBJECT_FMT=ELF USETOOLS=no BSD_INSTALL_PROGRAM=/usr/bin/install\ -c\ -s\ -o\ pbulk\ -g\ users\ -m\ 755 BSD_INSTALL_SCRIPT=/usr/bin/install\ -c\ -o\ pbulk\ -g\ users\ -m\ 755 BSD_INSTALL_LIB=/usr/bin/install\ -c\ -o\ pbulk\ -g\ users\ -m\ 755 BSD_INSTALL_DATA=/usr/bin/install\ -c\ -o\ pbulk\ -g\ users\ -m\ 644 BSD_INSTALL_MAN=/usr/bin/install\ -c\ -o\ pbulk\ -g\ users\ -m\ 644 BSD_INSTALL=/usr/bin/install BSD_INSTALL_PROGRAM_DIR=/usr/bin/install\ -d\ -o\ pbulk\ -g\ users\ -m\ 755 BSD_INSTALL_SCRIPT_DIR=/usr/bin/install\ -d\ -o\ pbulk\ -g\ users\ -m\ 755 BSD_INSTALL_LIB_DIR=/usr/bin/install\ -d\ -o\ pbulk\ -g\ users\ -m\ 755 BSD_INSTALL_DATA_DIR=/usr/bin/install\ -d\ -o\ pbulk\ -g\ users\ -m\ 755 BSD_INSTALL_MAN_DIR=/usr/bin/install\ -d\ -o\ pbulk\ -g\ users\ -m\ 755 BSD_INSTALL_GAME=/usr/bin/install\ -c\ -s\ -o\ pbulk\ -g\ users\ -m\ 2555 BSD_INSTALL_GAME_DATA=/usr/bin/install\ -c\ -o\ pbulk\ -g\ users\ -m\ 664 BSD_INSTALL_GAME_DIR=/usr/bin/install\ -d\ -o\ pbulk\ -g\ users\ -m\ 775 INSTALL_INFO= MAKEINFO=/var/pkgsrc/work/math/py-Scientific/work/.tools/bin/makeinfo FLEX= BISON= PKG_CONFIG= PKG_CONFIG_LIBDIR=/var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/pkgconfig:/var/pkgsrc/work/math/py-Scientific/work/.buildlink/share/pkgconfig PKG_CONFIG_LOG=/var/pkgsrc/work/math/py-Scientific/work/.pkg-config.log PKG_CONFIG_PATH= CWRAPPERS_CONFIG_DIR=/var/pkgsrc/work/math/py-Scientific/work/.cwrapper/config /usr/pkg/bin/python2.7 setup.py build ) Using netCDF installation in /usr/pkg running build running build_py creating build creating build/lib.freebsd-11.2-RELEASE-amd64-2.7 creating build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific copying Scientific/__init__.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific copying Scientific/__pkginfo__.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific copying Scientific/DictWithDefault.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific copying Scientific/FFT.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific copying Scientific/indexing.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific copying Scientific/LA.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific copying Scientific/Mathematica.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific copying Scientific/N.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific copying Scientific/NRNG.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific copying Scientific/NumberDict.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific creating build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Clustering copying Scientific/Clustering/__init__.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Clustering copying Scientific/Clustering/AffinityPropagation.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Clustering creating build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Functions copying Scientific/Functions/__init__.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Functions copying Scientific/Functions/Derivatives.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Functions copying Scientific/Functions/FindRoot.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Functions copying Scientific/Functions/FirstDerivatives.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Functions copying Scientific/Functions/Interpolation.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Functions copying Scientific/Functions/LeastSquares.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Functions copying Scientific/Functions/Polynomial.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Functions copying Scientific/Functions/Rational.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Functions copying Scientific/Functions/Romberg.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Functions creating build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Geometry copying Scientific/Geometry/__init__.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Geometry copying Scientific/Geometry/Objects3D.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Geometry copying Scientific/Geometry/Quaternion.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Geometry copying Scientific/Geometry/TensorAnalysis.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Geometry copying Scientific/Geometry/TensorModule.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Geometry copying Scientific/Geometry/Transformation.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Geometry copying Scientific/Geometry/VectorModule.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Geometry creating build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/IO copying Scientific/IO/__init__.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/IO copying Scientific/IO/ArrayIO.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/IO copying Scientific/IO/FortranFormat.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/IO copying Scientific/IO/NetCDF.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/IO copying Scientific/IO/PDB.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/IO copying Scientific/IO/PDBExportFilters.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/IO copying Scientific/IO/PDBSpaceGroups.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/IO copying Scientific/IO/TextFile.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/IO creating build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Physics copying Scientific/Physics/__init__.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Physics copying Scientific/Physics/PhysicalQuantities.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Physics copying Scientific/Physics/Potential.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Physics creating build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/QtWidgets copying Scientific/QtWidgets/__init__.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/QtWidgets copying Scientific/QtWidgets/qt_fake.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/QtWidgets copying Scientific/QtWidgets/QtPlotCanvas.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/QtWidgets copying Scientific/QtWidgets/QtVisualizationCanvas.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/QtWidgets creating build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Statistics copying Scientific/Statistics/__init__.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Statistics copying Scientific/Statistics/Histogram.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Statistics creating build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Signals copying Scientific/Signals/__init__.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Signals copying Scientific/Signals/Models.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Signals creating build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Threading copying Scientific/Threading/__init__.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Threading copying Scientific/Threading/TaskManager.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Threading creating build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/TkWidgets copying Scientific/TkWidgets/__init__.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/TkWidgets copying Scientific/TkWidgets/TkPlotCanvas.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/TkWidgets copying Scientific/TkWidgets/TkVisualizationCanvas.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/TkWidgets copying Scientific/TkWidgets/Utility.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/TkWidgets creating build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Visualization copying Scientific/Visualization/__init__.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Visualization copying Scientific/Visualization/Color.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Visualization copying Scientific/Visualization/PyMOL.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Visualization copying Scientific/Visualization/VMD.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Visualization copying Scientific/Visualization/VPython.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Visualization copying Scientific/Visualization/VRML.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Visualization copying Scientific/Visualization/VRML2.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/Visualization creating build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/MPI copying Scientific/MPI/__init__.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/MPI copying Scientific/MPI/core.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/MPI copying Scientific/MPI/IO.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/MPI creating build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/DistributedComputing copying Scientific/DistributedComputing/__init__.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/DistributedComputing copying Scientific/DistributedComputing/MasterSlave.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/DistributedComputing copying Scientific/DistributedComputing/TaskManager.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/DistributedComputing creating build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/BSP copying Scientific/BSP/__init__.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/BSP copying Scientific/BSP/Console.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/BSP copying Scientific/BSP/core.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/BSP copying Scientific/BSP/IO.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/BSP copying Scientific/BSP/RemoteObjects.py -> build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/BSP running build_ext building 'Scientific_netcdf' extension creating build/temp.freebsd-11.2-RELEASE-amd64-2.7 creating build/temp.freebsd-11.2-RELEASE-amd64-2.7/Src clang -DNDEBUG -O2 -fwrapv -pthread -D_THREAD_SAFE -I/usr/include -I/usr/pkg/include -O2 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include -I/usr/include -fPIC -IInclude -I/usr/pkg/include -I/usr/pkg/lib/python2.7/site-packages/numpy/core/include -I/usr/pkg/include/python2.7 -c Src/Scientific_netcdf.c -o build/temp.freebsd-11.2-RELEASE-amd64-2.7/Src/Scientific_netcdf.o -DNUMPY=1 In file included from Src/Scientific_netcdf.c:14: In file included from /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4: In file included from /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18: In file included from /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1816: /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it by " \ ^ Src/Scientific_netcdf.c:189:7: warning: 'NPY_CHAR' is deprecated: Use NPY_STRING [-Wdeprecated-declarations] PyArray_CHAR, /* 8-bit character */ ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/old_defines.h:49:29: note: expanded from macro 'PyArray_CHAR' #define PyArray_CHAR NPY_CHAR ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:84:30: note: 'NPY_CHAR' has been explicitly marked deprecated here NPY_CHAR NPY_ATTR_DEPRECATE("Use NPY_STRING"), ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:25:50: note: expanded from macro 'NPY_ATTR_DEPRECATE' #define NPY_ATTR_DEPRECATE(text) __attribute__ ((deprecated (text))) ^ Src/Scientific_netcdf.c:325:8: warning: 'NPY_CHAR' is deprecated: Use NPY_STRING [-Wdeprecated-declarations] case PyArray_CHAR: ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/old_defines.h:49:29: note: expanded from macro 'PyArray_CHAR' #define PyArray_CHAR NPY_CHAR ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:84:30: note: 'NPY_CHAR' has been explicitly marked deprecated here NPY_CHAR NPY_ATTR_DEPRECATE("Use NPY_STRING"), ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:25:50: note: expanded from macro 'NPY_ATTR_DEPRECATE' #define NPY_ATTR_DEPRECATE(text) __attribute__ ((deprecated (text))) ^ Src/Scientific_netcdf.c:422:8: warning: 'NPY_CHAR' is deprecated: Use NPY_STRING [-Wdeprecated-declarations] case PyArray_CHAR: ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/old_defines.h:49:29: note: expanded from macro 'PyArray_CHAR' #define PyArray_CHAR NPY_CHAR ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:84:30: note: 'NPY_CHAR' has been explicitly marked deprecated here NPY_CHAR NPY_ATTR_DEPRECATE("Use NPY_STRING"), ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:25:50: note: expanded from macro 'NPY_ATTR_DEPRECATE' #define NPY_ATTR_DEPRECATE(text) __attribute__ ((deprecated (text))) ^ Src/Scientific_netcdf.c:477:20: warning: 'NPY_CHAR' is deprecated: Use NPY_STRING [-Wdeprecated-declarations] if (py_type == PyArray_CHAR) { ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/old_defines.h:49:29: note: expanded from macro 'PyArray_CHAR' #define PyArray_CHAR NPY_CHAR ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:84:30: note: 'NPY_CHAR' has been explicitly marked deprecated here NPY_CHAR NPY_ATTR_DEPRECATE("Use NPY_STRING"), ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:25:50: note: expanded from macro 'NPY_ATTR_DEPRECATE' #define NPY_ATTR_DEPRECATE(text) __attribute__ ((deprecated (text))) ^ Src/Scientific_netcdf.c:1647:21: warning: 'NPY_CHAR' is deprecated: Use NPY_STRING [-Wdeprecated-declarations] if (self->type != PyArray_CHAR || self->nd != 1) { ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/old_defines.h:49:29: note: expanded from macro 'PyArray_CHAR' #define PyArray_CHAR NPY_CHAR ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:84:30: note: 'NPY_CHAR' has been explicitly marked deprecated here NPY_CHAR NPY_ATTR_DEPRECATE("Use NPY_STRING"), ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:25:50: note: expanded from macro 'NPY_ATTR_DEPRECATE' #define NPY_ATTR_DEPRECATE(text) __attribute__ ((deprecated (text))) ^ Src/Scientific_netcdf.c:1879:21: warning: 'NPY_CHAR' is deprecated: Use NPY_STRING [-Wdeprecated-declarations] if (self->type != PyArray_CHAR || self->nd != 1) { ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/old_defines.h:49:29: note: expanded from macro 'PyArray_CHAR' #define PyArray_CHAR NPY_CHAR ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:84:30: note: 'NPY_CHAR' has been explicitly marked deprecated here NPY_CHAR NPY_ATTR_DEPRECATE("Use NPY_STRING"), ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:25:50: note: expanded from macro 'NPY_ATTR_DEPRECATE' #define NPY_ATTR_DEPRECATE(text) __attribute__ ((deprecated (text))) ^ 7 warnings generated. creating build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/freebsd11 clang -shared -L/var/pkgsrc/work/lang/python27/work/Python-2.7.15 -pthread -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib -O2 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include -I/usr/include build/temp.freebsd-11.2-RELEASE-amd64-2.7/Src/Scientific_netcdf.o -L/usr/pkg/lib -L/usr/pkg/lib -Wl,-rpath=/usr/pkg/lib -lnetcdf -lpython2.7 -o build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/freebsd11/Scientific_netcdf.so -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib building 'Scientific_vector' extension clang -DNDEBUG -O2 -fwrapv -pthread -D_THREAD_SAFE -I/usr/include -I/usr/pkg/include -O2 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include -I/usr/include -fPIC -IInclude -I/usr/pkg/lib/python2.7/site-packages/numpy/core/include -I/usr/pkg/include/python2.7 -c Src/Scientific_vector.c -o build/temp.freebsd-11.2-RELEASE-amd64-2.7/Src/Scientific_vector.o -DNUMPY=1 clang -shared -L/var/pkgsrc/work/lang/python27/work/Python-2.7.15 -pthread -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib -O2 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include -I/usr/include build/temp.freebsd-11.2-RELEASE-amd64-2.7/Src/Scientific_vector.o -L/usr/pkg/lib -lm -lpython2.7 -o build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/freebsd11/Scientific_vector.so -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib building 'Scientific_affinitypropagation' extension clang -DNDEBUG -O2 -fwrapv -pthread -D_THREAD_SAFE -I/usr/include -I/usr/pkg/include -O2 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include -I/usr/include -fPIC -IInclude -I/usr/pkg/lib/python2.7/site-packages/numpy/core/include -I/usr/pkg/include/python2.7 -c Src/Scientific_affinitypropagation.c -o build/temp.freebsd-11.2-RELEASE-amd64-2.7/Src/Scientific_affinitypropagation.o -DNUMPY=1 In file included from Src/Scientific_affinitypropagation.c:14: In file included from Include/Scientific/arrayobject.h:2: In file included from /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/oldnumeric.h:1: In file included from /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4: In file included from /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18: In file included from /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1816: /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it by " \ ^ 1 warning generated. clang -shared -L/var/pkgsrc/work/lang/python27/work/Python-2.7.15 -pthread -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib -O2 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include -I/usr/include build/temp.freebsd-11.2-RELEASE-amd64-2.7/Src/Scientific_affinitypropagation.o -L/usr/pkg/lib -lm -lpython2.7 -o build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/freebsd11/Scientific_affinitypropagation.so -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib building 'Scientific_numerics_package_id' extension clang -DNDEBUG -O2 -fwrapv -pthread -D_THREAD_SAFE -I/usr/include -I/usr/pkg/include -O2 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include -I/usr/include -fPIC -IInclude -I/usr/pkg/lib/python2.7/site-packages/numpy/core/include -I/usr/pkg/include/python2.7 -c Src/Scientific_numerics_package_id.c -o build/temp.freebsd-11.2-RELEASE-amd64-2.7/Src/Scientific_numerics_package_id.o -DNUMPY=1 In file included from Src/Scientific_numerics_package_id.c:14: In file included from Include/Scientific/arrayobject.h:2: In file included from /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/oldnumeric.h:1: In file included from /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4: In file included from /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18: In file included from /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1816: /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it by " \ ^ 1 warning generated. clang -shared -L/var/pkgsrc/work/lang/python27/work/Python-2.7.15 -pthread -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib -O2 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include -I/usr/include build/temp.freebsd-11.2-RELEASE-amd64-2.7/Src/Scientific_numerics_package_id.o -L/usr/pkg/lib -lpython2.7 -o build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/freebsd11/Scientific_numerics_package_id.so -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib building 'Scientific_interpolation' extension clang -DNDEBUG -O2 -fwrapv -pthread -D_THREAD_SAFE -I/usr/include -I/usr/pkg/include -O2 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include -I/usr/include -fPIC -IInclude -I/usr/pkg/lib/python2.7/site-packages/numpy/core/include -I/usr/pkg/include/python2.7 -c Src/Scientific_interpolation.c -o build/temp.freebsd-11.2-RELEASE-amd64-2.7/Src/Scientific_interpolation.o -DNUMPY=1 In file included from Src/Scientific_interpolation.c:26: In file included from Include/Scientific/arrayobject.h:2: In file included from /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/oldnumeric.h:1: In file included from /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4: In file included from /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18: In file included from /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1816: /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it by " \ ^ 1 warning generated. clang -shared -L/var/pkgsrc/work/lang/python27/work/Python-2.7.15 -pthread -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib -O2 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include -I/usr/include build/temp.freebsd-11.2-RELEASE-amd64-2.7/Src/Scientific_interpolation.o -L/usr/pkg/lib -lm -lpython2.7 -o build/lib.freebsd-11.2-RELEASE-amd64-2.7/Scientific/freebsd11/Scientific_interpolation.so -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib running build_scripts creating build/scripts-2.7 copying and adjusting task_manager -> build/scripts-2.7 copying and adjusting bsp_virtual -> build/scripts-2.7 changing mode of build/scripts-2.7/task_manager from 644 to 755 changing mode of build/scripts-2.7/bsp_virtual from 644 to 755 In file included from Scientific_mpi.c:15: In file included from ../../Include/Scientific/mpimodule.h:88: In file included from ../../Include/Scientific/arrayobject.h:2: In file included from /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/oldnumeric.h:1: In file included from /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4: In file included from /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18: In file included from /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1816: /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it by " \ ^ Scientific_mpi.c:40:8: warning: 'NPY_CHAR' is deprecated: Use NPY_STRING [-Wdeprecated-declarations] case PyArray_CHAR: ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/old_defines.h:49:29: note: expanded from macro 'PyArray_CHAR' #define PyArray_CHAR NPY_CHAR ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:84:30: note: 'NPY_CHAR' has been explicitly marked deprecated here NPY_CHAR NPY_ATTR_DEPRECATE("Use NPY_STRING"), ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:25:50: note: expanded from macro 'NPY_ATTR_DEPRECATE' #define NPY_ATTR_DEPRECATE(text) __attribute__ ((deprecated (text))) ^ Scientific_mpi.c:373:34: warning: 'NPY_CHAR' is deprecated: Use NPY_STRING [-Wdeprecated-declarations] error = PyMPI_Send(comm, data, PyArray_CHAR, count, dest, tag); ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/old_defines.h:49:29: note: expanded from macro 'PyArray_CHAR' #define PyArray_CHAR NPY_CHAR ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:84:30: note: 'NPY_CHAR' has been explicitly marked deprecated here NPY_CHAR NPY_ATTR_DEPRECATE("Use NPY_STRING"), ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:25:50: note: expanded from macro 'NPY_ATTR_DEPRECATE' #define NPY_ATTR_DEPRECATE(text) __attribute__ ((deprecated (text))) ^ Scientific_mpi.c:469:8: warning: 'NPY_CHAR' is deprecated: Use NPY_STRING [-Wdeprecated-declarations] PyArray_CHAR, count, dest, tag); ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/old_defines.h:49:29: note: expanded from macro 'PyArray_CHAR' #define PyArray_CHAR NPY_CHAR ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:84:30: note: 'NPY_CHAR' has been explicitly marked deprecated here NPY_CHAR NPY_ATTR_DEPRECATE("Use NPY_STRING"), ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:25:50: note: expanded from macro 'NPY_ATTR_DEPRECATE' #define NPY_ATTR_DEPRECATE(text) __attribute__ ((deprecated (text))) ^ Scientific_mpi.c:563:4: warning: 'NPY_CHAR' is deprecated: Use NPY_STRING [-Wdeprecated-declarations] PyArray_CHAR, count, ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/old_defines.h:49:29: note: expanded from macro 'PyArray_CHAR' #define PyArray_CHAR NPY_CHAR ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:84:30: note: 'NPY_CHAR' has been explicitly marked deprecated here NPY_CHAR NPY_ATTR_DEPRECATE("Use NPY_STRING"), ^ /var/pkgsrc/work/math/py-Scientific/work/.buildlink/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:25:50: note: expanded from macro 'NPY_ATTR_DEPRECATE' #define NPY_ATTR_DEPRECATE(text) __attribute__ ((deprecated (text))) ^ 5 warnings generated. cmd = mpicc -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib -Wl,-R/usr/lib -pthread -lpthread -lrt -Wl,--export-dynamic -o mpipython -I../../Include -O2 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python2.7 -DNUMPY=1 -I/usr/pkg/lib/python2.7/site-packages/numpy/core/include mpipython.c Scientific_mpi.c -L/usr/pkg/lib/python2.7/config -lpython2.7 -ldl -lpthread -lrt -lutil -lm