[SciPy-user] Error when install SciPy on OS X 10.5.6

Tue May 12 21:51:40 EDT 2009

Chensong Zhang wrote:
> Mac OS X 10.5.6
>
> svn current version of scipy
>
> gcc --version
> i686-apple-darwin9-gcc-4.0.1 (GCC) 4.0.1 (Apple Inc. build 5490)
>
> gfortran --version
> GNU Fortran (GCC) 4.3.3
>
> Warning: No configuration returned, assuming unavailable.
> 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 /System/Library/Frameworks/ 
> Python.framework/Versions/2.5/lib
>    libraries umfpack not found in /usr/local/lib
>    libraries umfpack not found in /usr/lib
>    libraries umfpack not found in /sw/lib
> /System/Library/Frameworks/Python.framework/Versions/2.5/Extras/lib/ 
> python/numpy/distutils/system_info.py:401: 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 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" sources
> building library "sc_c_misc" sources
> building library "sc_cephes" sources
> building library "sc_mach" sources
> building library "sc_toms" 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-i386-2.5/fortranobject.c' to sources.
>    adding 'build/src.macosx-10.5-i386-2.5' to include_dirs.
> building extension "scipy.fftpack.convolve" sources
> f2py options: []
>    adding 'build/src.macosx-10.5-i386-2.5/fortranobject.c' to sources.
>    adding 'build/src.macosx-10.5-i386-2.5' 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-i386-2.5/fortranobject.c' to sources.
>    adding 'build/src.macosx-10.5-i386-2.5' to include_dirs.
> building extension "scipy.integrate.dop" sources
> f2py options: []
>    adding 'build/src.macosx-10.5-i386-2.5/fortranobject.c' to sources.
>    adding 'build/src.macosx-10.5-i386-2.5' to include_dirs.
> building extension "scipy.interpolate._fitpack" sources
> building extension "scipy.interpolate.dfitpack" sources
> f2py options: []
>    adding 'build/src.macosx-10.5-i386-2.5/fortranobject.c' to sources.
>    adding 'build/src.macosx-10.5-i386-2.5' to include_dirs.
>    adding 'build/src.macosx-10.5-i386-2.5/scipy/interpolate/src/ 
> dfitpack-f2pywrappers.f' to sources.
> building extension "scipy.interpolate._interpolate" sources
> building extension "scipy.io.numpyio" sources
> building extension "scipy.lib.blas.fblas" sources
> f2py options: ['skip:', ':']
>    adding 'build/src.macosx-10.5-i386-2.5/fortranobject.c' to sources.
>    adding 'build/src.macosx-10.5-i386-2.5' to include_dirs.
>    adding 'build/src.macosx-10.5-i386-2.5/build/src.macosx-10.5- 
> i386-2.5/scipy/lib/blas/fblas-f2pywrappers.f' to sources.
> building extension "scipy.lib.blas.cblas" sources
>    adding 'build/src.macosx-10.5-i386-2.5/scipy/lib/blas/cblas.pyf' to  
> sources.
> f2py options: ['skip:', ':']
>    adding 'build/src.macosx-10.5-i386-2.5/fortranobject.c' to sources.
>    adding 'build/src.macosx-10.5-i386-2.5' to include_dirs.
> building extension "scipy.lib.lapack.flapack" sources
> f2py options: ['skip:', ':']
>    adding 'build/src.macosx-10.5-i386-2.5/fortranobject.c' to sources.
>    adding 'build/src.macosx-10.5-i386-2.5' to include_dirs.
> building extension "scipy.lib.lapack.clapack" sources
>    adding 'build/src.macosx-10.5-i386-2.5/scipy/lib/lapack/ 
> clapack.pyf' to sources.
> f2py options: ['skip:', ':']
>    adding 'build/src.macosx-10.5-i386-2.5/fortranobject.c' to sources.
>    adding 'build/src.macosx-10.5-i386-2.5' to include_dirs.
> building extension "scipy.lib.lapack.calc_lwork" sources
> f2py options: []
>    adding 'build/src.macosx-10.5-i386-2.5/fortranobject.c' to sources.
>    adding 'build/src.macosx-10.5-i386-2.5' to include_dirs.
> building extension "scipy.lib.lapack.atlas_version" sources
> building extension "scipy.linalg.fblas" sources
>    adding 'build/src.macosx-10.5-i386-2.5/scipy/linalg/fblas.pyf' to  
> sources.
> f2py options: []
>    adding 'build/src.macosx-10.5-i386-2.5/fortranobject.c' to sources.
>    adding 'build/src.macosx-10.5-i386-2.5' to include_dirs.
>    adding 'build/src.macosx-10.5-i386-2.5/build/src.macosx-10.5- 
> i386-2.5/scipy/linalg/fblas-f2pywrappers.f' to sources.
> building extension "scipy.linalg.cblas" sources
>    adding 'build/src.macosx-10.5-i386-2.5/scipy/linalg/cblas.pyf' to  
> sources.
> f2py options: []
>    adding 'build/src.macosx-10.5-i386-2.5/fortranobject.c' to sources.
>    adding 'build/src.macosx-10.5-i386-2.5' to include_dirs.
> building extension "scipy.linalg.flapack" sources
>    adding 'build/src.macosx-10.5-i386-2.5/scipy/linalg/flapack.pyf' to  
> sources.
> f2py options: []
>    adding 'build/src.macosx-10.5-i386-2.5/fortranobject.c' to sources.
>    adding 'build/src.macosx-10.5-i386-2.5' to include_dirs.
>    adding 'build/src.macosx-10.5-i386-2.5/build/src.macosx-10.5- 
> i386-2.5/scipy/linalg/flapack-f2pywrappers.f' to sources.
> building extension "scipy.linalg.clapack" sources
>    adding 'build/src.macosx-10.5-i386-2.5/scipy/linalg/clapack.pyf' to  
> sources.
> f2py options: []
>    adding 'build/src.macosx-10.5-i386-2.5/fortranobject.c' to sources.
>    adding 'build/src.macosx-10.5-i386-2.5' to include_dirs.
> building extension "scipy.linalg._flinalg" sources
> f2py options: []
>    adding 'build/src.macosx-10.5-i386-2.5/fortranobject.c' to sources.
>    adding 'build/src.macosx-10.5-i386-2.5' to include_dirs.
> building extension "scipy.linalg.calc_lwork" sources
> f2py options: []
>    adding 'build/src.macosx-10.5-i386-2.5/fortranobject.c' to sources.
>    adding 'build/src.macosx-10.5-i386-2.5' to include_dirs.
> building extension "scipy.linalg.atlas_version" sources
> 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-i386-2.5/fortranobject.c' to sources.
>    adding 'build/src.macosx-10.5-i386-2.5' to include_dirs.
> building extension "scipy.optimize.moduleTNC" sources
> building extension "scipy.optimize._cobyla" sources
> f2py options: []
>    adding 'build/src.macosx-10.5-i386-2.5/fortranobject.c' to sources.
>    adding 'build/src.macosx-10.5-i386-2.5' to include_dirs.
> building extension "scipy.optimize.minpack2" sources
> f2py options: []
>    adding 'build/src.macosx-10.5-i386-2.5/fortranobject.c' to sources.
>    adding 'build/src.macosx-10.5-i386-2.5' to include_dirs.
> building extension "scipy.optimize._slsqp" sources
> f2py options: []
>    adding 'build/src.macosx-10.5-i386-2.5/fortranobject.c' to sources.
>    adding 'build/src.macosx-10.5-i386-2.5' to include_dirs.
> building extension "scipy.optimize._nnls" sources
> f2py options: []
>    adding 'build/src.macosx-10.5-i386-2.5/fortranobject.c' to sources.
>    adding 'build/src.macosx-10.5-i386-2.5' to include_dirs.
> building extension "scipy.signal.sigtools" sources
> conv_template:> build/src.macosx-10.5-i386-2.5/scipy/signal/lfilter.inc
> Traceback (most recent call last):
>    File "setup.py", line 158, in <module>
>      setup_package()
>    File "setup.py", line 150, in setup_package
>      configuration=configuration )
>    File "/System/Library/Frameworks/Python.framework/Versions/2.5/ 
> Extras/lib/python/numpy/distutils/core.py", line 174, in setup
>      return old_setup(**new_attr)
>    File "/System/Library/Frameworks/Python.framework/Versions/2.5/lib/ 
> python2.5/distutils/core.py", line 151, in setup
>      dist.run_commands()
>    File "/System/Library/Frameworks/Python.framework/Versions/2.5/lib/ 
> python2.5/distutils/dist.py", line 974, in run_commands
>      self.run_command(cmd)
>    File "/System/Library/Frameworks/Python.framework/Versions/2.5/lib/ 
> python2.5/distutils/dist.py", line 994, in run_command
>      cmd_obj.run()
>    File "/System/Library/Frameworks/Python.framework/Versions/2.5/ 
> Extras/lib/python/numpy/distutils/command/build_src.py", line 87, in run
>      self.build_sources()
>    File "/System/Library/Frameworks/Python.framework/Versions/2.5/ 
> Extras/lib/python/numpy/distutils/command/build_src.py", line 106, in  
> build_sources
>      self.build_extension_sources(ext)
>    File "/System/Library/Frameworks/Python.framework/Versions/2.5/ 
> Extras/lib/python/numpy/distutils/command/build_src.py", line 214, in  
> build_extension_sources
>      sources = self.template_sources(sources, ext)
>    File "/System/Library/Frameworks/Python.framework/Versions/2.5/ 
> Extras/lib/python/numpy/distutils/command/build_src.py", line 322, in  
> template_sources
>      outstr = process_c_file(source)
>    File "/System/Library/Frameworks/Python.framework/Versions/2.5/ 
> Extras/lib/python/numpy/distutils/conv_template.py", line 191, in  
> process_file
>      % (sourcefile, process_str(''.join(lines))))
>    File "/System/Library/Frameworks/Python.framework/Versions/2.5/ 
> Extras/lib/python/numpy/distutils/conv_template.py", line 156, in  
> process_str
>      newstr[sub[0]:sub[1]], sub[4])
>    File "/System/Library/Frameworks/Python.framework/Versions/2.5/ 
> Extras/lib/python/numpy/distutils/conv_template.py", line 120, in  
> expand_sub
>      for k in range(numsubs):
> TypeError: range() integer end argument expected, got NoneType.
>
>   

You are more than likely using an old numpy. Scipy svn requires numpy 1.3.0

cheers,

David