[SciPy-Dev] scipy 0.9.0 scipy.test fails with segmentation fault

Baker D.J. D.J.Baker@soton.ac...
Wed Sep 21 05:50:53 CDT 2011


Hello,

I'm building the latest numpy and scipy for one of the users here. The installation of numpy 1.6.1 looks good, however scipy 0.9.0 is not so great. I find that scipy.test(verbose=10) fails with a segmentation fault. Here's an extract from the typescript:

[root@blue33 ~]# python
Python 2.6.5 (r265:79063, Apr 16 2010, 20:05:16)
[GCC 4.1.2 20080704 (Red Hat 4.1.2-44)] on linux2
Type "help", "copyright", "credits" or "license" for more information.
>>> import sys
>>> sys.path.insert(0,"/local/software/rh53/scipy/0.9.0/gcc/lib/python2.6/site-packages/")
>>> import numpy
>>> import scipy
>>> scipy.test(verbose=10)
Running unit tests for scipy
NumPy version 1.6.1
NumPy is installed in /local/software/rh53/python/2.6.5/gcc/lib/python2.6/site-packages/numpy
SciPy version 0.9.0
SciPy is installed in /local/software/rh53/scipy/0.9.0/gcc/lib/python2.6/site-packages/scipy
Python version 2.6.5 (r265:79063, Apr 16 2010, 20:05:16) [GCC 4.1.2 20080704 (Red Hat 4.1.2-44)]
nose version 0.11.4
etc, etc, etc
test_nonlin.TestJacobianDotSolve.test_broyden1 ... Segmentation fault

This is an "out of the box" installation. I'm working on a RHELS 5.3 machine, I use the GNU compilers ((GCC) 4.1.2) and the blas/lapack routines provided by the RHELS rpms. I could potentially switch to the Intel compilers and MKL, however I have many problems compiling numpy/scipy with the Intel compilers in the past. Is this a known problem and/or can anyone please advise me how to work around this problem? I would appreciate your advice, please.

Best regards - David.

Dr David J Baker
iSolutions
University of Southampton
Highfield
Southampton
SO17 1BJ

Email: D.J.Baker@soton.ac.uk

Tel: +44 23 80598352
Fax: +44 23 80593131

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