[SciPy-user] Can't find atlas for scipy install

[Pearu Peterson]

On Tue, 15 Oct 2002, Francesc Alted wrote:

> On Tue, Oct 15, 2002 at 02:16:17AM +0300, Pearu Peterson wrote:
> > CVS scipy should now detect Debian atlas libraries so that creating the
> > symbolic link above would be unnecessary. Can you confirm that?
> 
> Ok. I have checked out the last version of scipy in CVS, deleted the
> symbolic link (I mean, /usr/lib/3dnow/liblapack.a ->
> /usr/lib/3dnow/atlas/liblapack.a), and here are my results:

<snip>

> lapack_info:
>   FOUND:
>     libraries = ['lapack']
>     library_dirs = ['/usr/lib']

Btw, on Debian, if atlas is present then scipy does not need that lapack
or blas would be installed.

> it I'm getting the next (non-fatal) errors:
> 
> the first:
> 
>  creating test suite for: scipy.common
>     !! FAILURE building test for  scipy.common
>         <string>:1: SyntaxError: invalid syntax (test_common.py, line 77)

Fixed in CVS.

> the second:
> 
> ****************************************************************
> WARNING: Importing clapack failed with the following exception:
> -----------
> exceptions.ImportError:
> /usr/local/lib/python2.2/site-packages/scipy/linalg/clapack.so:
> undefined symbol: clapack_sgetri
> -----------
> See scipy/INSTALL.txt for troubleshooting.
  ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^

I understand that often such comments can be ignored (can they?) but in
this particular case you should follow it literally.

> the third and last:
> 
>  creating test suite for: scipy.linalg.matfuncs
>    !! FAILURE building test for  scipy.linalg.matfuncs
>       <string>:1: ImportError: No module named test_matfuncs (in ?)
>       creating test suite for: scipy.linalg.basic

It means that nobody had a change to implement the tests for
scipy.linalg.matfuncs module, yet.

> but I had this once:
> 
> .
> ======================================================================
> FAIL: check_normal (test_morestats.test_anderson)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
>   File
> "/usr/local/lib/python2.2/site-packages/scipy/stats/tests/test_morestats.
> py", line 46, in check_normal
>     assert(scipy.all(A < crit[-2:]))
> AssertionError

Yes, that sometimes happens. You can ignore it.

> Sorry, I don't remember if these errors appeared on the previous version
> I've tested.

First and third error were certainly there, second error could not be
there because atlas was not used, and the fourth you'll probably see also
in future, occasionally.

Regards,
	Pearu