pysparse-users

[Pysparse-users] pysparse with ATLAS : modified setup.py needed

[morovia m. <jal...@go...>]

Hello,

       I could compile pysparse by enabling atlas
library as stated in the comments of setup.py.   But
I still get ImportError : undefined symbol "ATL_dcopy"
when I try to import precon.

 Can you please point out, where I need to make exactly
the changes in the setup.py.

Thanks in advance
Best regards

Viswanath.

Re: [Pysparse-users] pysparse with ATLAS : modified setup.py needed

[Dominique O. <dom...@gm...>]

On Thu, Nov 26, 2009 at 2:05 AM, morovia morovia
<jal...@go...> wrote:

>        I could compile pysparse by enabling atlas
> library as stated in the comments of setup.py.   But
> I still get ImportError : undefined symbol "ATL_dcopy"
> when I try to import precon.
>
>  Can you please point out, where I need to make exactly
> the changes in the setup.py.

Hi Viswanath,

Could you show us the variables you changed in setup.py? Basically for
ATLAS support you need to link with libatlas, libf77blas and libcblas.
Those libraries must also be in your LD_LIBRARY_PATH.

We really need to be using the Numpy Distutils in Pysparse !

Thanks,

-- 
Dominique

Re: [Pysparse-users] pysparse with ATLAS : modified setup.py needed

[morovia m. <jal...@go...>]

Dear Dominique,


> Could you show us the variables you changed in setup.py? Basically for
> ATLAS support you need to link with libatlas, libf77blas and libcblas.
> Those libraries must also be in your LD_LIBRARY_PATH.
>
> We really need to be using the Numpy Distutils in Pysparse !
>
>
Thanks for your reply.  I have my atlas libraries installed in $HOME/bin/lib
where the libraries, libf77blas.a, libcblas.a, libatlas.a are present.

My .bashrc contains :
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:$HOME/bin/lib:$HOME/bin/lib/ATLAS/

I have modified the following lines in the setup.py of pysparse,

library_dirs_list= ['','/home/viswanath/bin/lib/ATLAS','/usr/lib']
libraries_list = ['atlas','lapack', 'blas']
superlu_defs = [('USE_VENDOR_BLAS',1)],('USE_VENDOR_ATLAS',1)]
umfpack_defs = [('DINT', 1), ('CBLAS', 1), ('ATLAS',1)] # with atlas c-blas
(http://math-atlas.sf.net)

else:
    umfpack_include_dirs = ['/home/viswanath/bin/lib/ATLAS','amd',
'umfpack']
    umfpack_library_dirs = ['','/home/viswanath/bin/lib/ATLAS']
    umfpack_libraries = ['atlas', 'cblas', 'm']

Thanks
Best regards
Viswanath.

Re: [Pysparse-users] pysparse with ATLAS : modified setup.py needed

[Dominique O. <dom...@gm...>]

On Fri, Nov 27, 2009 at 12:10 AM, morovia morovia
<jal...@go...> wrote:

> Thanks for your reply.  I have my atlas libraries installed in $HOME/bin/lib
> where the libraries, libf77blas.a, libcblas.a, libatlas.a are present.
>
> My .bashrc contains :
> export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:$HOME/bin/lib:$HOME/bin/lib/ATLAS/
>
> I have modified the following lines in the setup.py of pysparse,
>
> library_dirs_list= ['','/home/viswanath/bin/lib/ATLAS','/usr/lib']
> libraries_list = ['atlas','lapack', 'blas']
> superlu_defs = [('USE_VENDOR_BLAS',1)],('USE_VENDOR_ATLAS',1)]
> umfpack_defs = [('DINT', 1), ('CBLAS', 1), ('ATLAS',1)] # with atlas c-blas
> (http://math-atlas.sf.net)
>
> else:
>     umfpack_include_dirs = ['/home/viswanath/bin/lib/ATLAS','amd',
> 'umfpack']
>     umfpack_library_dirs = ['','/home/viswanath/bin/lib/ATLAS']
>     umfpack_libraries = ['atlas', 'cblas', 'm']

If libf77blas.a, libcblas.a, libatlas.a are in $HOME/bin/lib, it seems
that you would need instead:

library_dirs_list= ['/home/viswanath/bin/lib','/usr/lib']
libraries_list = ['f77blas', 'cblas', 'atlas', 'lapack']

Let us know if that works.

-- 
Dominique

Re: [Pysparse-users] pysparse with ATLAS : modified setup.py needed

[morovia m. <jal...@go...>]

Dear Dominique,


> If libf77blas.a, libcblas.a, libatlas.a are in $HOME/bin/lib, it seems
> that you would need instead:
>
> library_dirs_list= ['/home/viswanath/bin/lib','/usr/lib']
> libraries_list = ['f77blas', 'cblas', 'atlas', 'lapack']
>
> Let us know if that works.
>

Your suggestion has worked and I could import precon !  However, when I
tried to run
the Examples, poisson_test_eig.py,

ImportError occurred,
undefined symbol : _gfortran_st_write in jdsym.so

Any suggestions !

Thanks
Best regards
Viswanath.