=> Bootstrap dependency digest>=20010302: found digest-20111104
=> Bootstrap dependency fetch-[0-9]*: found fetch-1.7
WARNING: [license.mk] Every package should define a LICENSE.
===> Building for py27-Scientific-2.8
(cd /tmp/pkgsrc/math/py-Scientific/work/ScientificPython-2.8/ && /usr/bin/env NETCDF_PREFIX=/usr/pkg USETOOLS=no NOGCCERROR=true NOGCCERROR=true PTHREAD_CFLAGS=\ -pthread\  PTHREAD_LDFLAGS=\ -pthread PTHREAD_LIBS=-lpthread\ -lrt PTHREADBASE=/usr DL_CFLAGS= DL_LDFLAGS= DL_LIBS= PYTHON=/usr/pkg/bin/python2.7 CC=gcc CFLAGS=-O3\ -pipe\ -fstack-protector\ -I/usr/pkg/include\ -I/usr/include CPPFLAGS=-I/usr/pkg/include\ -I/usr/include CXX=g++ CXXFLAGS=-O3\ -pipe\ -fstack-protector\ -I/usr/pkg/include\ -I/usr/include COMPILER_RPATH_FLAG=-Wl,-R F77=f77 FC=f77 FFLAGS=-O LANG=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/lib64\ -Wl,-R/usr/lib64 LINKER_RPATH_FLAG=-R PATH=/tmp/pkgsrc/math/py-Scientific/work/.wrapper/bin:/tmp/pkgsrc/math/py-Scientific/work/.buildlink/bin:/tmp/pkgsrc/math/py-Scientific/work/.gcc/bin:/tmp/pkgsrc/math/py-Scientific/work/.tools/bin:/usr/pkg/bin:/bin:/usr/bin:/usr/pkg/bin:/usr/pkg/bin PREFIX=/usr/pkg PKG_SYSCONFDIR=/usr/pkg/etc CXXCPP=cpp HOME=/tmp/pkgsrc/math/py-Scientific/work/.home CPP=cpp LINK_ALL_LIBGCC_HACK= LOCALBASE=/usr/pkg NO_WHOLE_ARCHIVE_FLAG=-Wl,--no-whole-archive WHOLE_ARCHIVE_FLAG=-Wl,--whole-archive X11BASE=/usr/pkg X11PREFIX=/usr/pkg PKGMANDIR=share/man PKGINFODIR=share/info MAKECONF=/dev/null OBJECT_FMT=ELF USETOOLS=no BSD_INSTALL_PROGRAM=/usr/bin/install\ -c\ -s\ -o\ pbulk\ -g\ pbulk\ -m\ 755 BSD_INSTALL_SCRIPT=/usr/bin/install\ -c\ -o\ pbulk\ -g\ pbulk\ -m\ 755 BSD_INSTALL_LIB=/usr/bin/install\ -c\ -o\ pbulk\ -g\ pbulk\ -m\ 755 BSD_INSTALL_DATA=/usr/bin/install\ -c\ -o\ pbulk\ -g\ pbulk\ -m\ 644 BSD_INSTALL_MAN=/usr/bin/install\ -c\ -o\ pbulk\ -g\ pbulk\ -m\ 644 BSD_INSTALL=/usr/bin/install BSD_INSTALL_PROGRAM_DIR=/usr/bin/install\ -d\ -o\ pbulk\ -g\ pbulk\ -m\ 755 BSD_INSTALL_SCRIPT_DIR=/usr/bin/install\ -d\ -o\ pbulk\ -g\ pbulk\ -m\ 755 BSD_INSTALL_LIB_DIR=/usr/bin/install\ -d\ -o\ pbulk\ -g\ pbulk\ -m\ 755 BSD_INSTALL_DATA_DIR=/usr/bin/install\ -d\ -o\ pbulk\ -g\ pbulk\ -m\ 755 BSD_INSTALL_MAN_DIR=/usr/bin/install\ -d\ -o\ pbulk\ -g\ pbulk\ -m\ 755 BSD_INSTALL_GAME=/usr/bin/install\ -c\ -s\ -o\ pbulk\ -g\ pbulk\ -m\ 2555 BSD_INSTALL_GAME_DATA=/usr/bin/install\ -c\ -o\ pbulk\ -g\ pbulk\ -m\ 664 BSD_INSTALL_GAME_DIR=/usr/bin/install\ -d\ -o\ pbulk\ -g\ pbulk\ -m\ 775 INSTALL_INFO= MAKEINFO=/tmp/pkgsrc/math/py-Scientific/work/.tools/bin/makeinfo FLEX= BISON= PKG_CONFIG= PKG_CONFIG_LIBDIR=/tmp/pkgsrc/math/py-Scientific/work/.buildlink/lib/pkgconfig:/tmp/pkgsrc/math/py-Scientific/work/.buildlink/share/pkgconfig PKG_CONFIG_LOG=/tmp/pkgsrc/math/py-Scientific/work/.pkg-config.log PKG_CONFIG_PATH= WRAPPER_DEBUG=no WRAPPER_UPDATE_CACHE=yes VIEWBASE=/usr/pkg /usr/pkg/bin/python2.7  setup.py  build )
Using netCDF installation in  /usr/pkg
running build
running build_py
creating build
creating build/lib.linux-x86_64-2.7
creating build/lib.linux-x86_64-2.7/Scientific
copying Scientific/LA.py -> build/lib.linux-x86_64-2.7/Scientific
copying Scientific/DictWithDefault.py -> build/lib.linux-x86_64-2.7/Scientific
copying Scientific/N.py -> build/lib.linux-x86_64-2.7/Scientific
copying Scientific/indexing.py -> build/lib.linux-x86_64-2.7/Scientific
copying Scientific/__pkginfo__.py -> build/lib.linux-x86_64-2.7/Scientific
copying Scientific/FFT.py -> build/lib.linux-x86_64-2.7/Scientific
copying Scientific/__init__.py -> build/lib.linux-x86_64-2.7/Scientific
copying Scientific/NumberDict.py -> build/lib.linux-x86_64-2.7/Scientific
copying Scientific/Mathematica.py -> build/lib.linux-x86_64-2.7/Scientific
copying Scientific/NRNG.py -> build/lib.linux-x86_64-2.7/Scientific
creating build/lib.linux-x86_64-2.7/Scientific/Clustering
copying Scientific/Clustering/__init__.py -> build/lib.linux-x86_64-2.7/Scientific/Clustering
copying Scientific/Clustering/AffinityPropagation.py -> build/lib.linux-x86_64-2.7/Scientific/Clustering
creating build/lib.linux-x86_64-2.7/Scientific/Functions
copying Scientific/Functions/Polynomial.py -> build/lib.linux-x86_64-2.7/Scientific/Functions
copying Scientific/Functions/FirstDerivatives.py -> build/lib.linux-x86_64-2.7/Scientific/Functions
copying Scientific/Functions/__init__.py -> build/lib.linux-x86_64-2.7/Scientific/Functions
copying Scientific/Functions/FindRoot.py -> build/lib.linux-x86_64-2.7/Scientific/Functions
copying Scientific/Functions/Romberg.py -> build/lib.linux-x86_64-2.7/Scientific/Functions
copying Scientific/Functions/LeastSquares.py -> build/lib.linux-x86_64-2.7/Scientific/Functions
copying Scientific/Functions/Rational.py -> build/lib.linux-x86_64-2.7/Scientific/Functions
copying Scientific/Functions/Derivatives.py -> build/lib.linux-x86_64-2.7/Scientific/Functions
copying Scientific/Functions/Interpolation.py -> build/lib.linux-x86_64-2.7/Scientific/Functions
creating build/lib.linux-x86_64-2.7/Scientific/Geometry
copying Scientific/Geometry/Objects3D.py -> build/lib.linux-x86_64-2.7/Scientific/Geometry
copying Scientific/Geometry/VectorModule.py -> build/lib.linux-x86_64-2.7/Scientific/Geometry
copying Scientific/Geometry/__init__.py -> build/lib.linux-x86_64-2.7/Scientific/Geometry
copying Scientific/Geometry/TensorAnalysis.py -> build/lib.linux-x86_64-2.7/Scientific/Geometry
copying Scientific/Geometry/TensorModule.py -> build/lib.linux-x86_64-2.7/Scientific/Geometry
copying Scientific/Geometry/Quaternion.py -> build/lib.linux-x86_64-2.7/Scientific/Geometry
copying Scientific/Geometry/Transformation.py -> build/lib.linux-x86_64-2.7/Scientific/Geometry
creating build/lib.linux-x86_64-2.7/Scientific/IO
copying Scientific/IO/FortranFormat.py -> build/lib.linux-x86_64-2.7/Scientific/IO
copying Scientific/IO/TextFile.py -> build/lib.linux-x86_64-2.7/Scientific/IO
copying Scientific/IO/PDBExportFilters.py -> build/lib.linux-x86_64-2.7/Scientific/IO
copying Scientific/IO/__init__.py -> build/lib.linux-x86_64-2.7/Scientific/IO
copying Scientific/IO/ArrayIO.py -> build/lib.linux-x86_64-2.7/Scientific/IO
copying Scientific/IO/NetCDF.py -> build/lib.linux-x86_64-2.7/Scientific/IO
copying Scientific/IO/PDB.py -> build/lib.linux-x86_64-2.7/Scientific/IO
copying Scientific/IO/PDBSpaceGroups.py -> build/lib.linux-x86_64-2.7/Scientific/IO
creating build/lib.linux-x86_64-2.7/Scientific/Physics
copying Scientific/Physics/PhysicalQuantities.py -> build/lib.linux-x86_64-2.7/Scientific/Physics
copying Scientific/Physics/__init__.py -> build/lib.linux-x86_64-2.7/Scientific/Physics
copying Scientific/Physics/Potential.py -> build/lib.linux-x86_64-2.7/Scientific/Physics
creating build/lib.linux-x86_64-2.7/Scientific/QtWidgets
copying Scientific/QtWidgets/QtPlotCanvas.py -> build/lib.linux-x86_64-2.7/Scientific/QtWidgets
copying Scientific/QtWidgets/QtVisualizationCanvas.py -> build/lib.linux-x86_64-2.7/Scientific/QtWidgets
copying Scientific/QtWidgets/__init__.py -> build/lib.linux-x86_64-2.7/Scientific/QtWidgets
copying Scientific/QtWidgets/qt_fake.py -> build/lib.linux-x86_64-2.7/Scientific/QtWidgets
creating build/lib.linux-x86_64-2.7/Scientific/Statistics
copying Scientific/Statistics/__init__.py -> build/lib.linux-x86_64-2.7/Scientific/Statistics
copying Scientific/Statistics/Histogram.py -> build/lib.linux-x86_64-2.7/Scientific/Statistics
creating build/lib.linux-x86_64-2.7/Scientific/Signals
copying Scientific/Signals/Models.py -> build/lib.linux-x86_64-2.7/Scientific/Signals
copying Scientific/Signals/__init__.py -> build/lib.linux-x86_64-2.7/Scientific/Signals
creating build/lib.linux-x86_64-2.7/Scientific/Threading
copying Scientific/Threading/__init__.py -> build/lib.linux-x86_64-2.7/Scientific/Threading
copying Scientific/Threading/TaskManager.py -> build/lib.linux-x86_64-2.7/Scientific/Threading
creating build/lib.linux-x86_64-2.7/Scientific/TkWidgets
copying Scientific/TkWidgets/Utility.py -> build/lib.linux-x86_64-2.7/Scientific/TkWidgets
copying Scientific/TkWidgets/__init__.py -> build/lib.linux-x86_64-2.7/Scientific/TkWidgets
copying Scientific/TkWidgets/TkPlotCanvas.py -> build/lib.linux-x86_64-2.7/Scientific/TkWidgets
copying Scientific/TkWidgets/TkVisualizationCanvas.py -> build/lib.linux-x86_64-2.7/Scientific/TkWidgets
creating build/lib.linux-x86_64-2.7/Scientific/Visualization
copying Scientific/Visualization/VPython.py -> build/lib.linux-x86_64-2.7/Scientific/Visualization
copying Scientific/Visualization/VRML.py -> build/lib.linux-x86_64-2.7/Scientific/Visualization
copying Scientific/Visualization/__init__.py -> build/lib.linux-x86_64-2.7/Scientific/Visualization
copying Scientific/Visualization/VMD.py -> build/lib.linux-x86_64-2.7/Scientific/Visualization
copying Scientific/Visualization/PyMOL.py -> build/lib.linux-x86_64-2.7/Scientific/Visualization
copying Scientific/Visualization/VRML2.py -> build/lib.linux-x86_64-2.7/Scientific/Visualization
copying Scientific/Visualization/Color.py -> build/lib.linux-x86_64-2.7/Scientific/Visualization
creating build/lib.linux-x86_64-2.7/Scientific/MPI
copying Scientific/MPI/core.py -> build/lib.linux-x86_64-2.7/Scientific/MPI
copying Scientific/MPI/__init__.py -> build/lib.linux-x86_64-2.7/Scientific/MPI
copying Scientific/MPI/IO.py -> build/lib.linux-x86_64-2.7/Scientific/MPI
creating build/lib.linux-x86_64-2.7/Scientific/DistributedComputing
copying Scientific/DistributedComputing/MasterSlave.py -> build/lib.linux-x86_64-2.7/Scientific/DistributedComputing
copying Scientific/DistributedComputing/__init__.py -> build/lib.linux-x86_64-2.7/Scientific/DistributedComputing
copying Scientific/DistributedComputing/TaskManager.py -> build/lib.linux-x86_64-2.7/Scientific/DistributedComputing
creating build/lib.linux-x86_64-2.7/Scientific/BSP
copying Scientific/BSP/Console.py -> build/lib.linux-x86_64-2.7/Scientific/BSP
copying Scientific/BSP/core.py -> build/lib.linux-x86_64-2.7/Scientific/BSP
copying Scientific/BSP/__init__.py -> build/lib.linux-x86_64-2.7/Scientific/BSP
copying Scientific/BSP/IO.py -> build/lib.linux-x86_64-2.7/Scientific/BSP
copying Scientific/BSP/RemoteObjects.py -> build/lib.linux-x86_64-2.7/Scientific/BSP
running build_ext
building 'Scientific_netcdf' extension
creating build/temp.linux-x86_64-2.7
creating build/temp.linux-x86_64-2.7/Src
gcc -DNDEBUG -O3 -pipe -fstack-protector -DHAVE_DB_185_H -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -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.linux-x86_64-2.7/Src/Scientific_netcdf.o -DNUMPY=1
creating build/lib.linux-x86_64-2.7/Scientific/linux2
gcc -pthread -shared -L/tmp/pkgsrc/lang/python27/work/Python-2.7.3 -L/usr/lib64 -Wl,-R/usr/lib64 -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib64 -Wl,-R/usr/lib64 -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/include -I/usr/pkg/include -I/usr/include build/temp.linux-x86_64-2.7/Src/Scientific_netcdf.o -L/usr/pkg/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -lnetcdf -lpython2.7 -o build/lib.linux-x86_64-2.7/Scientific/linux2/Scientific_netcdf.so -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib64 -Wl,-R/usr/lib64
building 'Scientific_vector' extension
gcc -DNDEBUG -O3 -pipe -fstack-protector -DHAVE_DB_185_H -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -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.linux-x86_64-2.7/Src/Scientific_vector.o -DNUMPY=1
gcc -pthread -shared -L/tmp/pkgsrc/lang/python27/work/Python-2.7.3 -L/usr/lib64 -Wl,-R/usr/lib64 -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib64 -Wl,-R/usr/lib64 -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/include -I/usr/pkg/include -I/usr/include build/temp.linux-x86_64-2.7/Src/Scientific_vector.o -L/usr/pkg/lib -lm -lpython2.7 -o build/lib.linux-x86_64-2.7/Scientific/linux2/Scientific_vector.so -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib64 -Wl,-R/usr/lib64
building 'Scientific_affinitypropagation' extension
gcc -DNDEBUG -O3 -pipe -fstack-protector -DHAVE_DB_185_H -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -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.linux-x86_64-2.7/Src/Scientific_affinitypropagation.o -DNUMPY=1
gcc -pthread -shared -L/tmp/pkgsrc/lang/python27/work/Python-2.7.3 -L/usr/lib64 -Wl,-R/usr/lib64 -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib64 -Wl,-R/usr/lib64 -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/include -I/usr/pkg/include -I/usr/include build/temp.linux-x86_64-2.7/Src/Scientific_affinitypropagation.o -L/usr/pkg/lib -lm -lpython2.7 -o build/lib.linux-x86_64-2.7/Scientific/linux2/Scientific_affinitypropagation.so -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib64 -Wl,-R/usr/lib64
building 'Scientific_numerics_package_id' extension
gcc -DNDEBUG -O3 -pipe -fstack-protector -DHAVE_DB_185_H -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -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.linux-x86_64-2.7/Src/Scientific_numerics_package_id.o -DNUMPY=1
gcc -pthread -shared -L/tmp/pkgsrc/lang/python27/work/Python-2.7.3 -L/usr/lib64 -Wl,-R/usr/lib64 -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib64 -Wl,-R/usr/lib64 -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/include -I/usr/pkg/include -I/usr/include build/temp.linux-x86_64-2.7/Src/Scientific_numerics_package_id.o -L/usr/pkg/lib -lpython2.7 -o build/lib.linux-x86_64-2.7/Scientific/linux2/Scientific_numerics_package_id.so -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib64 -Wl,-R/usr/lib64
building 'Scientific_interpolation' extension
gcc -DNDEBUG -O3 -pipe -fstack-protector -DHAVE_DB_185_H -I/usr/include -I/usr/pkg/include/db4 -I/usr/pkg/include -I/usr/pkg/include/ncurses -O3 -pipe -fstack-protector -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.linux-x86_64-2.7/Src/Scientific_interpolation.o -DNUMPY=1
gcc -pthread -shared -L/tmp/pkgsrc/lang/python27/work/Python-2.7.3 -L/usr/lib64 -Wl,-R/usr/lib64 -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib64 -Wl,-R/usr/lib64 -O3 -pipe -fstack-protector -I/usr/pkg/include -I/usr/include -I/usr/pkg/include -I/usr/include build/temp.linux-x86_64-2.7/Src/Scientific_interpolation.o -L/usr/pkg/lib -lm -lpython2.7 -o build/lib.linux-x86_64-2.7/Scientific/linux2/Scientific_interpolation.so -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib64 -Wl,-R/usr/lib64
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
=> Unwrapping files-to-be-installed.
cmd =  mpicc   -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/lib64 -Wl,-R/usr/lib64  -pthread -lpthread -lrt -Xlinker -export-dynamic -o mpipython -I../../Include -O3 -pipe -fstack-protector -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 -lmpich -lpython2.7 -lpthread -ldl  -lutil -lm