[Numpy-discussion] Unable to building numpy with openblas using bento or distutils

Skipper Seabold jsseabold@gmail....
Sat Mar 23 20:06:48 CDT 2013


On Sat, Mar 23, 2013 at 8:44 PM, Skipper Seabold <jsseabold@gmail.com> wrote:
> On Sat, Mar 23, 2013 at 7:26 PM, Ake Sandgren <ake.sandgren@hpc2n.umu.se> wrote:
>> On Sat, 2013-03-23 at 14:19 -0400, Skipper Seabold wrote:
>>> Some help on this would be greatly appreciated. It's been recommended
>>> to use OpenBlas over ATLAS, so I've been trying to build numpy with
>>> openblas and have run into a few problems.
>>
>>>
>>> To truly support OpenBlas, is it maybe necessary to make some
>>> additions to numpy/distutils/system_info.py?
>>
>> Here is how.
>>
>> https://github.com/akesandgren/numpy/commit/363339dd3a9826f3e3e7dc4248c258d3c4dfcd7c
>>
>
>
> Thanks that works well for numpy. Test pass. I hope that makes it into
> a pull request. My site.cfg looks like this. I don't know about the
> lapack_opt section. It doesn't seem to work.
>
> [DEFAULT]
> library_dirs = /home/skipper/.local/lib
> include_dirs = /home/skipper/.local/include
>
> [openblas]
> libraries = openblas
>
> [lapack_opt]
> libraries = openblas
>
> Do you have any idea how to get scipy working too. I have a similar
> site.cfg, but it does not find lapack, which is rolled into
> libopenblas from what I understand. I can do
>
> export LAPACK=~/.local/lib/libopenblas.a
> python setup.py build &> build.log
> sudo -E python setup.py install
>
> There are no obvious failures in the build.log, but scipy is still
> broken because it needs lapack from numpy I guess.

The answer is to

export BLAS=~/.local/lib/libopenblas.a
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:~/.local/lib/

before building and installing. Now everything works. Whew. Thanks a
lot for the help.

>
>>>> import numpy as np
>>>> np.show_config()
> lapack_info:
>   NOT AVAILABLE
> atlas_threads_info:
>   NOT AVAILABLE
> blas_opt_info:
>     libraries = ['openblas', 'openblas']
>     library_dirs = ['/home/skipper/.local/lib']
>     language = f77
> lapack_src_info:
>   NOT AVAILABLE
> openblas_info:
>     libraries = ['openblas', 'openblas']
>     library_dirs = ['/home/skipper/.local/lib']
>     language = f77
> lapack_opt_info:
>   NOT AVAILABLE
> atlas_info:
>   NOT AVAILABLE
> lapack_mkl_info:
>   NOT AVAILABLE
> blas_mkl_info:
>   NOT AVAILABLE
> mkl_info:
>   NOT AVAILABLE
>>>> from scipy import stats
> Traceback (most recent call last):
>   File "<stdin>", line 1, in <module>
>   File "/usr/local/lib/python2.7/dist-packages/scipy/stats/__init__.py",
> line 320, in <module>
>     from .stats import *
>   File "/usr/local/lib/python2.7/dist-packages/scipy/stats/stats.py",
> line 242, in <module>
>     import scipy.linalg as linalg
>   File "/usr/local/lib/python2.7/dist-packages/scipy/linalg/__init__.py",
> line 147, in <module>
>     from .misc import *
>   File "/usr/local/lib/python2.7/dist-packages/scipy/linalg/misc.py",
> line 5, in <module>
>     from . import blas
>   File "/usr/local/lib/python2.7/dist-packages/scipy/linalg/blas.py",
> line 113, in <module>
>     from scipy.linalg import _fblas
> ImportError: libopenblas.so.0: cannot open shared object file: No such
> file or directory
>
> Skipper


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