Max Mayzel wrote:
> Dag Sverre Seljebotn <da...@...> writes:
>
>
>>>>>>> Hi,
>>>>>>> I'm trying to run testlapack example from cython-notur09 on OS X 10.6.
>>>>>>> First, while compiling I faced with following error
>>>>>>> gcc -L/sw64/lib -bundle -L/sw64/lib/python2.6/config -lpython2.6
>>>>>>> build/temp.macosx-10.4-i386-2.6/lapack.o
>>>>>>> -L/Applications/development/sage//local/lib -llapack -lf77blas -lcblas
>>>>>>> -latlas -o lapack.so -g
>>>>>>> Undefined symbols:
>>>>>>> "_clapack_dgesv", referenced from:
>>>>>>> _dgesv in lapack.o
>>>>>>> _dsolve in lapack.o
>>>>>>> ld: symbol(s) not found
>>>>>>> So I changed clapack_dgesw in lapack.pxd to dgesw and successfully
>>>>>>> build it against SAGE (sage-4.2.1-OSX10.6-Intel-64bit-i386-Darwin.dmg)
>>>>>>> but when I run testlapack.test() python froze, using 100% of CPU,
>>>>>>> below is debuging info.
>>>>>>>
>>>>> In [3]: numpy.show_config()
>>>>> lapack_opt_info:
>>>>> extra_link_args = ['-Wl,-framework', '-Wl,Accelerate']
>>>>> extra_compile_args = ['-msse3']
>>>>> define_macros = [('NO_ATLAS_INFO', 3)]
>>>>>
>>>>> blas_opt_info:
>>>>> extra_link_args = ['-Wl,-framework', '-Wl,Accelerate']
>>>>> extra_compile_args = ['-msse3',
>>>>> '-I/System/Library/Frameworks/vecLib.framework/Headers']
>>>>> define_macros = [('NO_ATLAS_INFO', 3)]
>>>>>
>>> Here it is
>>> In [2]: scipy.show_config()
>>> amd_info:
>>> libraries = ['amd']
>>> library_dirs = ['/sw64/lib']
>>>
>>> umfpack_info:
>>> libraries = ['umfpack', 'amd']
>>> library_dirs = ['/sw64/lib']
>>>
>>> lapack_opt_info:
>>> extra_link_args = ['-Wl,-framework', '-Wl,Accelerate']
>>> extra_compile_args = ['-msse3']
>>> define_macros = [('NO_ATLAS_INFO', 3)]
>>>
>>> blas_opt_info:
>>> extra_link_args = ['-Wl,-framework', '-Wl,Accelerate']
>>> extra_compile_args = ['-msse3',
>>> '-I/System/Library/Frameworks/vecLib.framework/Headers']
>>> define_macros = [('NO_ATLAS_INFO', 3)]
>>>
>>>
>> Have you tried dropping libraries=.... from setup.py? You should really
>> build your extension the way SciPy has been built, meaning modifying
>> setup.py so that gcc is invoked in the way described by blas_opt_info above.
>>
>> Dag Sverre
>>
>>
> Finally I used following setup.py
>
> from distutils.core import setup
> from distutils.extension import Extension
> from Cython.Distutils import build_ext
> import os
> import numpy as np
>
> ext_modules=[
> Extension("lapack",
> ["lapack.pyx"],
> libraries=['lapack', 'cblas'],
> extra_link_args = ['-Wl,-framework', '-Wl,Accelerate'],
> extra_compile_args =
> ['-faltivec','-I/System/Library/Frameworks/vecLib.framework/Headers'],
> define_macros = [('NO_ATLAS_INFO', 3)],
> include_dirs=[np.get_include()]),
> Extension("testlapack",
> ["testlapack.pyx"],
> include_dirs=[np.get_include()]),
> ]
>
> setup(
> name = 'LAPACK wrapping demo',
> cmdclass = {'build_ext': build_ext},
> ext_modules = ext_modules,
> )
>
> I build it using /usr/bin/python, lapack.so and testlapack.so are used
> following
> libs, but it still don't work.
> otool -L lapack.so
> lapack.so:
> /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/
> vecLib.framework/Versions/A/libLAPACK.dylib (compatibility version
> 1.0.0,
> current version 219.0.0)
> /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/
> vecLib.framework/Versions/A/libBLAS.dylib (compatibility version
> 1.0.0,
> current version 219.0.0)
> /System/Library/Frameworks/Accelerate.framework/Versions/A/Accelerate
> (compatibility version 1.0.0, current version 4.0.0)
> /usr/lib/libgcc_s.1.dylib (compatibility version 1.0.0,
> current version 246.0.0)
> /usr/lib/libSystem.B.dylib (compatibility version 1.0.0,
> current version 125.0.0)
>
> otool -L testlapack.so
> testlapack.so:
> /usr/lib/libgcc_s.1.dylib (compatibility version 1.0.0,
> current version 246.0.0)
> /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, c
> urrent version 125.0.0)
>
> But it still doesn't work (
>
You mentioned Sage earlier...Sage comes with its own LAPACK, so by using
"sage -python" BOTH to get scipy.show_info() and put the information in
setup.py AND do the compilation you might get different results...
Dag Sverre
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