[IPython-dev] Numpy with OpenBLAS vs. IPython

[Florian M. Wagner]

Any ideas? Has someone here a functioning setup with Numpy-OpenBlas and 
the scientific (I)Python stack on Linux and is willing to share the 
necessary installation steps?

Am 30.10.2013 09:46, schrieb Florian M. Wagner:
> I reproduced the error with the latest IPython source:
>
>     fwagner at fwagner-notebook ~/Downloads/ipython $ ipython
>     Python 2.7.4 (default, Sep 26 2013, 03:20:26)
>     Type "copyright", "credits" or "license" for more information.
>
>     IPython 2.0.0-dev -- An enhanced Interactive Python.
>     ?         -> Introduction and overview of IPython's features.
>     %quickref -> Quick reference.
>     help      -> Python's own help system.
>     object?   -> Details about 'object', use 'object??' for extra details.
>
>     In [1]: A = np.random.randn(50,50)
>
>     In [2]: A[0,0]
>     Out[2]: 0.62268531821589967
>
>     In [3]: A.T.dot(A)
>     Speicherzugriffsfehler
>
> Compared to:
>
>     Python 2.7.4 (default, Sep 26 2013, 03:20:26)
>     [GCC 4.7.3] on linux2
>     Type "help", "copyright", "credits" or "license" for more information.
>     >>> import numpy as np
>     >>> A = np.random.randn(50,50)
>     >>> A.T.dot(A)
>     array([[  4.61866860e+01,   1.97714469e+00, 8.78842173e+00, ...,
>              -9.65143259e+00,   4.74312877e+00, -1.85163266e+01],
>            [  1.97714469e+00,   4.50113072e+01, -1.13105045e+01, ...,
>               2.31604581e+00,   4.93068512e+00, 1.29316267e+01],
>            [  8.78842173e+00,  -1.13105045e+01, 6.02859864e+01, ...,
>              -2.65040891e+00,   3.98374437e+00, -1.54860323e+01],
>            ...,
>            [ -9.65143259e+00,   2.31604581e+00, -2.65040891e+00, ...,
>               3.81774984e+01,   1.63768677e+00, 1.16681961e+01],
>            [  4.74312877e+00,   4.93068512e+00, 3.98374437e+00, ...,
>               1.63768677e+00,   5.11159138e+01, 6.56039753e-02],
>            [ -1.85163266e+01,   1.29316267e+01, -1.54860323e+01, ...,
>               1.16681961e+01,   6.56039753e-02, 6.61061915e+01]])
>
>
>
> Am 30.10.2013 09:33, schrieb Florian M. Wagner:
>> Thanks guys,
>>
>> @Julian: Reducing the thread number did not help
>> @Thomas: dap is mpl-basemap dependency, fixed the import issue, but the
>> error still occurs
>>
>> It is really weird that it is occuring only when printing the array, or
>> slicing the array. And whats more weird, that it works in plain Python
>> as I understood that IPython has no numpy dependency?
>>
>> Thanks and regards
>> Florian
>>
>> Am 29.10.2013 19:39, schrieb Julian Taylor:
>>> does this also happen if you do this before starting ipython?
>>>
>>> export OPENBLAS_NUM_THREADS=1
>>> (assuming bash shell)
>>>
>>> On 29.10.2013 17:19, Florian M. Wagner wrote:
>>>> Dear all,
>>>>
>>>> I recently compiled numpy with OpenBlas for faster matrix-matrix
>>>> multiplication. Everything works fine, but IPython seems to dislike it.
>>>> I get a Segmentation Fault error when trying this (I reinstalled IPython
>>>> 1.1.0 after numpy compilation):
>>>>
>>>>       fwagner at fwagner-notebook ~ $ ipython -c "import numpy as np; print
>>>>       np.__version__; import IPython; print IPython.__version__; A =
>>>>       np.random.randn(600, 600); print A[20,53]; print A"
>>>>       /usr/local/bin/ipython:5: UserWarning: Module dap was already
>>>>       imported from None, but /usr/lib/python2.7/dist-packages is being
>>>>       added to sys.path
>>>>         from pkg_resources import load_entry_point
>>>>       1.9.0.dev-54d3559
>>>>       1.1.0
>>>>       -2.1004055886
>>>>       Speicherzugriffsfehler
>>>>
>>>> In comparison, this works fine (just python instead of ipython):
>>>>
>>>>       fwagner at fwagner-notebook ~ $ python -c "import numpy as np; print
>>>>       np.__version__; import IPython; print IPython.__version__; A =
>>>>       np.random.randn(600, 600); print A[20,53]; print A"
>>>>       1.9.0.dev-54d3559
>>>>       1.1.0
>>>>       -1.10282239744
>>>>       [[ 0.13798084 -0.39195796 -0.15309986 ...,  1.47471232 -0.9158455
>>>>          0.97060671]
>>>>        [ 0.25720169  0.51895478  0.55175787 ..., -0.02010573  0.78047754
>>>>         -1.07891961]
>>>>        [ 1.59478156  0.81245486 -0.03959768 ..., -0.04816659 -0.03356907
>>>>         -0.11860379]
>>>>        ...,
>>>>        [-0.06299817 -0.0956477  -0.32987518 ..., -1.47714386  1.66736916
>>>>         -0.47704276]
>>>>        [-0.93769589  1.50006542  0.97782803 ..., -0.5034154   1.31592011
>>>>         -0.74482995]
>>>>        [-0.24661336 -0.98979706 -0.39366363 ...,  0.20507632  0.8701609
>>>>         -1.10449957]]
>>>>
>>>> Any ideas what might cause this problem?
>>>>
>>>> Thanks,
>>>>
>>>> Florian
>>>>
>>>>
>>>>
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>>>>
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