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POscipy-0.12.0 failing to install on mountain lion using python setup.py install
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copied!<p>am struggling to install scipy-0.12.0. I have already installed numpy-1.7.1.</p> <p>I am NOT installing with pip but am installing with python setup.py install</p> <p>I am using tcsh so have setenv FFLAGS "-ff2c"</p> <p>and am getting the following errors:</p> <pre><code>Running from scipy source directory. blas_opt_info: FOUND: extra_link_args = ['-Wl,-framework', '-Wl,Accelerate'] define_macros = [('NO_ATLAS_INFO', 3)] extra_compile_args = ['-msse3', '-I/System/Library/Frameworks/vecLib.framework/Headers'] lapack_opt_info: FOUND: extra_link_args = ['-Wl,-framework', '-Wl,Accelerate'] define_macros = [('NO_ATLAS_INFO', 3)] extra_compile_args = ['-msse3'] umfpack_info: libraries umfpack not found in ['/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework /Versions/2.7/lib', '/usr/local/lib', '/usr/lib', '/opt/local/lib'] /Users/mariepears/Library/Python/2.7/lib/python/site-packages/numpy/distutils /system_info.py:495: UserWarning: UMFPACK sparse solver (http://www.cise.ufl.edu/research/sparse/umfpack/) not found. Directories to search for the libraries can be specified in the numpy/distutils/site.cfg file (section [umfpack]) or by setting the UMFPACK environment variable. warnings.warn(self.notfounderror.__doc__) NOT AVAILABLE running install running build running config_cc unifing config_cc, config, build_clib, build_ext, build commands --compiler options running config_fc unifing config_fc, config, build_clib, build_ext, build commands --fcompiler options running build_src build_src building py_modules sources building library "dfftpack" sources building library "fftpack" sources building library "linpack_lite" sources building library "mach" sources building library "quadpack" sources building library "odepack" sources building library "dop" sources building library "fitpack" sources building library "odrpack" sources building library "minpack" sources building library "rootfind" sources building library "superlu_src" sources building library "arpack_scipy" sources building library "sc_c_misc" sources building library "sc_cephes" sources building library "sc_mach" sources building library "sc_amos" sources building library "sc_cdf" sources building library "sc_specfun" sources building library "statlib" sources building extension "scipy.cluster._vq" sources building extension "scipy.cluster._hierarchy_wrap" sources building extension "scipy.fftpack._fftpack" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. building extension "scipy.fftpack.convolve" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. building extension "scipy.integrate._quadpack" sources building extension "scipy.integrate._odepack" sources building extension "scipy.integrate.vode" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. building extension "scipy.integrate.lsoda" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. building extension "scipy.integrate._dop" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. building extension "scipy.interpolate.interpnd" sources building extension "scipy.interpolate._fitpack" sources building extension "scipy.interpolate.dfitpack" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. adding 'build/src.macosx-10.5-intel-2.7/scipy/interpolate/src/dfitpack-f2pywrappers.f' to sources. building extension "scipy.interpolate._interpolate" sources building extension "scipy.io.matlab.streams" sources building extension "scipy.io.matlab.mio_utils" sources building extension "scipy.io.matlab.mio5_utils" sources building extension "scipy.lib.blas.fblas" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. adding 'build/src.macosx-10.5-intel-2.7/build/src.macosx-10.5-intel-2.7/scipy/lib/blas/fblas-f2pywrappers.f' to sources. building extension "scipy.lib.blas.cblas" sources adding 'build/src.macosx-10.5-intel-2.7/scipy/lib/blas/cblas.pyf' to sources. f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. building extension "scipy.lib.lapack.flapack" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. building extension "scipy.lib.lapack.clapack" sources adding 'build/src.macosx-10.5-intel-2.7/scipy/lib/lapack/clapack.pyf' to sources. f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. building extension "scipy.lib.lapack.calc_lwork" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. building extension "scipy.linalg._fblas" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. adding 'build/src.macosx-10.5-intel-2.7/build/src.macosx-10.5-intel-2.7/scipy/linalg/_fblas-f2pywrappers.f' to sources. building extension "scipy.linalg._flapack" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. adding 'build/src.macosx-10.5-intel-2.7/build/src.macosx-10.5-intel-2.7/scipy/linalg/_flapack-f2pywrappers.f' to sources. building extension "scipy.linalg._flinalg" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. building extension "scipy.linalg.calc_lwork" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. building extension "scipy.odr.__odrpack" sources building extension "scipy.optimize._minpack" sources building extension "scipy.optimize._zeros" sources building extension "scipy.optimize._lbfgsb" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. building extension "scipy.optimize.moduleTNC" sources building extension "scipy.optimize._cobyla" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. building extension "scipy.optimize.minpack2" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. building extension "scipy.optimize._slsqp" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. building extension "scipy.optimize._nnls" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. building extension "scipy.signal.sigtools" sources building extension "scipy.signal._spectral" sources building extension "scipy.signal.spline" sources building extension "scipy.sparse.linalg.isolve._iterative" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. building extension "scipy.sparse.linalg.dsolve._superlu" sources building extension "scipy.sparse.linalg.dsolve.umfpack.__umfpack" sources building extension "scipy.sparse.linalg.eigen.arpack._arpack" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. adding 'build/src.macosx-10.5-intel-2.7/build/src.macosx-10.5-intel-2.7/scipy/sparse/linalg/eigen/arpack/_arpack-f2pywrappers.f' to sources. building extension "scipy.sparse.sparsetools._csr" sources building extension "scipy.sparse.sparsetools._csc" sources building extension "scipy.sparse.sparsetools._coo" sources building extension "scipy.sparse.sparsetools._bsr" sources building extension "scipy.sparse.sparsetools._dia" sources building extension "scipy.sparse.sparsetools._csgraph" sources building extension "scipy.sparse.csgraph._shortest_path" sources building extension "scipy.sparse.csgraph._traversal" sources building extension "scipy.sparse.csgraph._min_spanning_tree" sources building extension "scipy.sparse.csgraph._tools" sources building extension "scipy.spatial.qhull" sources building extension "scipy.spatial.ckdtree" sources building extension "scipy.spatial._distance_wrap" sources building extension "scipy.special.specfun" sources f2py options: ['--no-wrap-functions'] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. building extension "scipy.special._ufuncs" sources building extension "scipy.special._ufuncs_cxx" sources building extension "scipy.stats.statlib" sources f2py options: ['--no-wrap-functions'] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. building extension "scipy.stats.vonmises_cython" sources building extension "scipy.stats._rank" sources building extension "scipy.stats.futil" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. building extension "scipy.stats.mvn" sources f2py options: [] adding 'build/src.macosx-10.5-intel-2.7/fortranobject.c' to sources. adding 'build/src.macosx-10.5-intel-2.7' to include_dirs. adding 'build/src.macosx-10.5-intel-2.7/scipy/stats/mvn-f2pywrappers.f' to sources. building extension "scipy.ndimage._nd_image" sources building data_files sources build_src: building npy-pkg config files running build_py copying scipy/version.py -> build/lib.macosx-10.5-intel-2.7/scipy copying build/src.macosx-10.5-intel-2.7/scipy/__config__.py -> build/lib.macosx-10.5-intel-2.7/scipy running build_clib customize UnixCCompiler customize UnixCCompiler using build_clib customize Gnu95FCompiler Found executable /usr/local/bin/gfortran customize Gnu95FCompiler customize Gnu95FCompiler using build_clib building 'arpack_scipy' library compiling C sources C compiler: /usr/bin/gcc-4.2 -fno-strict-aliasing -fno-common -dynamic -arch i386 -arch x86_64 -Os -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes compile options: '-Iscipy/sparse/linalg/eigen/arpack/ARPACK/SRC -I/Users/mariepears/Library/Python/2.7/lib/python/site-packages/numpy/core/include -c' gcc-4.2: scipy/sparse/linalg/eigen/arpack/ARPACK/FWRAPPERS/veclib_cabi_c.c In file included from /System/Library/Frameworks/vecLib.framework/Headers/vecLib.h:43, from /System/Library/Frameworks/Accelerate.framework/Headers/Accelerate.h:20, from scipy/sparse/linalg/eigen/arpack/ARPACK/FWRAPPERS/veclib_cabi_c.c:2: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:51:23: error: immintrin.h: No such file or directory In file included from /System/Library/Frameworks/vecLib.framework/Headers/vecLib.h:43, from /System/Library/Frameworks/Accelerate.framework/Headers/Accelerate.h:20, from scipy/sparse/linalg/eigen/arpack/ARPACK/FWRAPPERS/veclib_cabi_c.c:2: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h: In function ‘vceilf’: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:53: error: incompatible types in return /System/Library/Frameworks/vecLib.framework/Headers/vfp.h: In function ‘vfloorf’: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:54: error: incompatible types in return /System/Library/Frameworks/vecLib.framework/Headers/vfp.h: In function ‘vintf’: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:55: error: ‘_MM_FROUND_TRUNC’ undeclared (first use in this function) /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:55: error: (Each undeclared identifier is reported only once /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:55: error: for each function it appears in.) /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:55: error: incompatible types in return /System/Library/Frameworks/vecLib.framework/Headers/vfp.h: In function ‘vnintf’: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:56: error: ‘_MM_FROUND_NINT’ undeclared (first use in this function) /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:56: error: incompatible types in return In file included from /System/Library/Frameworks/vecLib.framework/Headers/vecLib.h:43, from /System/Library/Frameworks/Accelerate.framework/Headers/Accelerate.h:20, from scipy/sparse/linalg/eigen/arpack/ARPACK/FWRAPPERS/veclib_cabi_c.c:2: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:51:23: error: immintrin.h: No such file or directory In file included from /System/Library/Frameworks/vecLib.framework/Headers/vecLib.h:43, from /System/Library/Frameworks/Accelerate.framework/Headers/Accelerate.h:20, from scipy/sparse/linalg/eigen/arpack/ARPACK/FWRAPPERS/veclib_cabi_c.c:2: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h: In function ‘vceilf’: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:53: error: incompatible types in return /System/Library/Frameworks/vecLib.framework/Headers/vfp.h: In function ‘vfloorf’: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:54: error: incompatible types in return /System/Library/Frameworks/vecLib.framework/Headers/vfp.h: In function ‘vintf’: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:55: error: ‘_MM_FROUND_TRUNC’ undeclared (first use in this function) /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:55: error: (Each undeclared identifier is reported only once /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:55: error: for each function it appears in.) /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:55: error: incompatible types in return /System/Library/Frameworks/vecLib.framework/Headers/vfp.h: In function ‘vnintf’: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:56: error: ‘_MM_FROUND_NINT’ undeclared (first use in this function) /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:56: error: incompatible types in return lipo: can't open input file: /var/folders/vv/86b4jvnx07559plzpbz14t600000gq/T//ccrTDfH7.out (No such file or directory) In file included from /System/Library/Frameworks/vecLib.framework/Headers/vecLib.h:43, from /System/Library/Frameworks/Accelerate.framework/Headers/Accelerate.h:20, from scipy/sparse/linalg/eigen/arpack/ARPACK/FWRAPPERS/veclib_cabi_c.c:2: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:51:23: error: immintrin.h: No such file or directory In file included from /System/Library/Frameworks/vecLib.framework/Headers/vecLib.h:43, from /System/Library/Frameworks/Accelerate.framework/Headers/Accelerate.h:20, from scipy/sparse/linalg/eigen/arpack/ARPACK/FWRAPPERS/veclib_cabi_c.c:2: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h: In function ‘vceilf’: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:53: error: incompatible types in return /System/Library/Frameworks/vecLib.framework/Headers/vfp.h: In function ‘vfloorf’: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:54: error: incompatible types in return /System/Library/Frameworks/vecLib.framework/Headers/vfp.h: In function ‘vintf’: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:55: error: ‘_MM_FROUND_TRUNC’ undeclared (first use in this function) /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:55: error: (Each undeclared identifier is reported only once /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:55: error: for each function it appears in.) /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:55: error: incompatible types in return /System/Library/Frameworks/vecLib.framework/Headers/vfp.h: In function ‘vnintf’: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:56: error: ‘_MM_FROUND_NINT’ undeclared (first use in this function) /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:56: error: incompatible types in return In file included from /System/Library/Frameworks/vecLib.framework/Headers/vecLib.h:43, from /System/Library/Frameworks/Accelerate.framework/Headers/Accelerate.h:20, from scipy/sparse/linalg/eigen/arpack/ARPACK/FWRAPPERS/veclib_cabi_c.c:2: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:51:23: error: immintrin.h: No such file or directory In file included from /System/Library/Frameworks/vecLib.framework/Headers/vecLib.h:43, from /System/Library/Frameworks/Accelerate.framework/Headers/Accelerate.h:20, from scipy/sparse/linalg/eigen/arpack/ARPACK/FWRAPPERS/veclib_cabi_c.c:2: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h: In function ‘vceilf’: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:53: error: incompatible types in return /System/Library/Frameworks/vecLib.framework/Headers/vfp.h: In function ‘vfloorf’: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:54: error: incompatible types in return /System/Library/Frameworks/vecLib.framework/Headers/vfp.h: In function ‘vintf’: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:55: error: ‘_MM_FROUND_TRUNC’ undeclared (first use in this function) /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:55: error: (Each undeclared identifier is reported only once /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:55: error: for each function it appears in.) /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:55: error: incompatible types in return /System/Library/Frameworks/vecLib.framework/Headers/vfp.h: In function ‘vnintf’: /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:56: error: ‘_MM_FROUND_NINT’ undeclared (first use in this function) /System/Library/Frameworks/vecLib.framework/Headers/vfp.h:56: error: incompatible types in return lipo: can't open input file: /var/folders/vv/86b4jvnx07559plzpbz14t600000gq/T//ccrTDfH7.out (No such file or directory) error: Command "/usr/bin/gcc-4.2 -fno-strict-aliasing -fno-common -dynamic -arch i386 -arch x86_64 -Os -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iscipy/sparse/linalg/eigen/arpack/ARPACK/SRC -I/Users/mariepears/Library/Python/2.7/lib/python/site-packages/numpy/core/include -c scipy/sparse/linalg/eigen/arpack/ARPACK/FWRAPPERS/veclib_cabi_c.c -o build/temp.macosx-10.5-intel-2.7/scipy/sparse/linalg/eigen/arpack/ARPACK/FWRAPPERS/veclib_cabi_c.o" failed with exit status 1 </code></pre> <p>Any help is much appreciated</p>

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