[SciPy-User] Today's master branch of Scipy test('10') segfaulting on OSX

[George Nurser]

Hi,
Running OSX 10.6.7, python 2.7.1 32/64 bit intel from python.org
(compiled with gcc-4.2) , gfortran 4.2, numpy 1.6.1rc2

I just pulled the latest version of scipy master;  git log gives top
commit as e86854bfab64a16c026106ccdf90761328b83272

scipy.test('10') gives a segfault.
First few lines of the Apple DiagnosticReport are:

Exception Type:  EXC_BAD_ACCESS (SIGSEGV)
Exception Codes: KERN_INVALID_ADDRESS at 0x00000002b9e72320
Crashed Thread:  0  Dispatch queue: com.apple.main-thread

Thread 0 Crashed:  Dispatch queue: com.apple.main-thread
0   libBLAS.dylib                 	0x00007fff87b9d010 ATL_zdotc_xp0yp0aXbX + 48
1   _iterative.so                 	0x0000000103b9cf8c zgmresrevcom_ + 1980
2   _iterative.so                 	0x0000000103b876eb
f2py_rout__iterative_zgmresrevcom + 1563 (_iterativemodule.c:5041)
3   org.python.python             	0x000000010000c9f2 PyObject_Call + 98

The whole of the segfault trace is attached as scipy.segfault

--George Nurser

Output of scipy.test('10') below:

Running unit tests for scipy
NumPy version 1.6.1rc2
NumPy is installed in
/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy
SciPy version 0.10.0.dev
SciPy is installed in
/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/scipy
Python version 2.7.1 (r271:86882M, Nov 30 2010, 10:35:34) [GCC 4.2.1
(Apple Inc. build 5664)]
nose version 0.11.3
............................................................................................................................................................................................................................K............................................................................................................/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/scipy/interpolate/fitpack2.py:678:
UserWarning:
The coefficients of the spline returned have been computed as the
minimal norm least-squares solution of a (numerically) rank deficient
system (deficiency=7). If deficiency is large, the results may be
inaccurate. Deficiency may strongly depend on the value of eps.
  warnings.warn(message)
....../Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/scipy/interpolate/fitpack2.py:609:
UserWarning:
The required storage space exceeds the available storage space: nxest
or nyest too small, or s too small.
The weighted least-squares spline corresponds to the current set of
knots.
  warnings.warn(message)
.......................K..K....../Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/numeric.py:1920:
RuntimeWarning: invalid value encountered in absolute
  return all(less_equal(absolute(x-y), atol + rtol * absolute(y)))
................................................................................................................................................................................................................................................................................................................................................................................................................./Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/scipy/io/wavfile.py:31:
WavFileWarning: Unfamiliar format bytes
  warnings.warn("Unfamiliar format bytes", WavFileWarning)
/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/scipy/io/wavfile.py:121:
WavFileWarning: chunk not understood
  warnings.warn("chunk not understood", WavFileWarning)
................................................................................./Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/lib/utils.py:139:
DeprecationWarning: `get_blas_funcs` is deprecated!
  warnings.warn(depdoc, DeprecationWarning)
..............................................................................................................................................SSSSSS......SSSSSS......SSSS............................................................................S................................................................................................................................................................................................................................................K.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................../Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/scipy/sparse/linalg/dsolve/linsolve.py:259:
DeprecationWarning: scipy.sparse.linalg.dsolve.umfpack will be
removed, install scikits.umfpack instead
  ' install scikits.umfpack instead', DeprecationWarning )
../Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/scipy/sparse/linalg/dsolve/linsolve.py:75:
DeprecationWarning: scipy.sparse.linalg.dsolve.umfpack will be
removed, install scikits.umfpack instead
  ' install scikits.umfpack instead', DeprecationWarning )
................F...F..F.....FF.EF..FEF.E.E...E........E...EF.F.F.FEE..E..E...................................................................F.......E.EFFFE.F..EF.E...EE...FEE...F.F..FEEF...EE..E............................................................EEEFFEEESegmentation
fault
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