[SciPy-user] Probs with scipy.test() and seg faults

[J Analytis]

Hey,
So I went through the INSTALL.txt instructions once more and I think the key 
step to redo was to make the optimised lapack library. It turned out that 
neither clapack.py nor cblas.pyf were in Lib/linalg/ so I only needed to 
remove fblas.pyf and flapack.pyf
After removing build/, I rebuilt and installed scipy.
Now, the output for scipy.test() has one failure:

............................................
======================================================================
FAIL: check_basic (test_morestats.test_shapiro)
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib/python2.2/site-packages/scipy/stats/tests/test_morestats.py", 
line 37, in check_basic
    assert_almost_equal(pw,0.52459925413131714,6)
  File "/usr/lib/python2.2/site-packages/scipy_test/testing.py", line 349, in 
assert_almost_equal
    assert round(abs(desired - actual),decimal) == 0, msg
AssertionError:
Items are not equal:
DESIRED: 0.52459925413131714
ACTUAL: 0.5246044397354126

----------------------------------------------------------------------
Ran 739 tests in 8.960s

FAILED (failures=1)
<unittest.TextTestRunner instance at 0x8269e0c>
>>>

No reference to srotmg_ errors, so I guess that means the ATLAS libraries were 
found.
Good enough?
Thanks again,
J


On Friday 06 June 2003 16:35, Pearu Peterson wrote:
> On Fri, 6 Jun 2003, J Analytis wrote:
> > Hey,
> > I've copied the two relevant sections from the scipy.test() output below.
>
> Thanks.
>
> > The
> > first is to do with finding clapack, but has corrected the problem by
> > using flapack.
> > The errors are related to incomplete BLAS sources. INSTALL.txt says I can
> > cure the prob by using ATLAS or the official release of BLAS libraries.
> > But I'm using atlas 3.5.2 so I should be ok.
>
> These undefined srotmg_ errors indicate that ATLAS was not found.
>
> > How do i find out if scipy is finding the ATLAS libraries correctly
> > (assuming that i've installed atlas properly!)? Is ATLAS incomplete?
> > (liblapack.a is about 5MB, and I wasn't able to find it using the command
> > python scipy_core/scipy_distutils/system.py
> > as suggested in the release notes.)
>
> If system_info.py does not show that it detected ATLAS libraries then
> also scipy installation cannot find ATLAS.
>
> Where did you install ATLAS libraries, what is its directory contents?
> You can use ATLAS environment variable to indicate the location of ATLAS
> libraries.
>
> > Also do I need to remove the existing scipy if I need to
> > rebuild/reinstall it?
>
> No. However removing scipy build directory might be a good idea before
> rebuilding scipy, also
>   rm -f Lib/linalg/{clapack,flapack,cblas,fblas}.pyf
> might be required, especially when having issues with finding ATLAS
> libraries. See also comments in the header of Lib/linalg/setup_linalg.py.
>
> Pearu
>
> _______________________________________________
> SciPy-user mailing list
> SciPy-user at scipy.net
> http://www.scipy.net/mailman/listinfo/scipy-user