[Numpy-discussion] Built Lapack, Atlas from source.... now numpy.linalg.eig() hangs at 100% CPU

Chris Colbert sccolbert@gmail....
Fri Mar 27 09:27:38 CDT 2009


This is numpy 1.3.0b1 and scipy 0.7.0 by the way. Forgot to mention it.

On Fri, Mar 27, 2009 at 10:25 AM, Chris Colbert <sccolbert@gmail.com> wrote:

> Hey Everyone,
>
> I built Lapack and Atlas from source last night on a C2D running 32-bit
> Linux Mint 6.  I ran 'make check' and 'make time' on the lapack build, and
> ran the dynamic LU decomp test on atlas. Both packages checked out fine.
>
> Then, I built numpy and scipy against them using the appropriate flags in
> site.cfg for the parallel thread atlas libraries. This seems to have worked
> properly as numpy.dot() utilizes both cores at 100% on very large arrays. I
> have also done id(numpy.dot) and id(numpy.core.multiarray.dot) and verified
> that the two ids are different.
>
> So I believe the build went properly. The problem I am having now is that
> numpy.linalg.eig (and the eig functions in scipy) hang at 100% CPU and never
> returns (no matter the array size). Numpy.test() hung as well, I'm assuming
> for this same reason. I have included the configurations below. Any idea
> what would cause this?
>
> Thanks!
>
> Chris
>
> Python 2.5.2 (r252:60911, Oct  5 2008, 19:24:49)
> [GCC 4.3.2] on linux2
> Type "help", "copyright", "credits" or "license" for more information.
> >>> import numpy
> >>> import scipy
> >>> numpy.show_config()
> atlas_threads_info:
>     libraries = ['lapack', 'ptf77blas', 'ptcblas', 'atlas']
>     library_dirs = ['/usr/local/atlas/lib']
>     language = f77
>     include_dirs = ['/usr/local/atlas/include']
>
> blas_opt_info:
>     libraries = ['ptf77blas', 'ptcblas', 'atlas']
>     library_dirs = ['/usr/local/atlas/lib']
>     define_macros = [('NO_ATLAS_INFO', 2)]
>     language = c
>     include_dirs = ['/usr/local/atlas/include']
>
> atlas_blas_threads_info:
>     libraries = ['ptf77blas', 'ptcblas', 'atlas']
>     library_dirs = ['/usr/local/atlas/lib']
>     language = c
>     include_dirs = ['/usr/local/atlas/include']
>
> lapack_opt_info:
>     libraries = ['lapack', 'ptf77blas', 'ptcblas', 'atlas']
>     library_dirs = ['/usr/local/atlas/lib']
>     define_macros = [('NO_ATLAS_INFO', 2)]
>     language = f77
>     include_dirs = ['/usr/local/atlas/include']
>
> lapack_mkl_info:
>   NOT AVAILABLE
>
> blas_mkl_info:
>   NOT AVAILABLE
>
> mkl_info:
>   NOT AVAILABLE
>
> >>> scipy.show_config()
> umfpack_info:
>   NOT AVAILABLE
>
> atlas_threads_info:
>     libraries = ['lapack', 'ptf77blas', 'ptcblas', 'atlas']
>     library_dirs = ['/usr/local/atlas/lib']
>     language = f77
>     include_dirs = ['/usr/local/atlas/include']
>
> blas_opt_info:
>     libraries = ['ptf77blas', 'ptcblas', 'atlas']
>     library_dirs = ['/usr/local/atlas/lib']
>     define_macros = [('ATLAS_INFO', '"\\"3.8.3\\""')]
>     language = c
>     include_dirs = ['/usr/local/atlas/include']
>
> atlas_blas_threads_info:
>     libraries = ['ptf77blas', 'ptcblas', 'atlas']
>     library_dirs = ['/usr/local/atlas/lib']
>     language = c
>     include_dirs = ['/usr/local/atlas/include']
>
> lapack_opt_info:
>     libraries = ['lapack', 'ptf77blas', 'ptcblas', 'atlas']
>     library_dirs = ['/usr/local/atlas/lib']
>     define_macros = [('NO_ATLAS_INFO', 2)]
>     language = f77
>     include_dirs = ['/usr/local/atlas/include']
>
> lapack_mkl_info:
>   NOT AVAILABLE
>
> blas_mkl_info:
>   NOT AVAILABLE
>
> mkl_info:
>   NOT AVAILABLE
>
>
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