[SciPy-User] OS X Lion build fails: arpack

[Paul Anton Letnes]

On 10. okt. 2011, at 11:17, Pauli Virtanen wrote:

> 10.10.2011 10:49, Paul Anton Letnes kirjoitti:
> [clip]
>> For the record, scipy 0.10b2 failed some tests and hangs on one of them.
>> That's why I remain somewhat skeptical with regard to its non-bugginess.
>> Would it be of interest to share the test results?
> 
> Please do, if it is different from the one known OSX-specific release
> blocker issue: http://projects.scipy.org/scipy/ticket/1523
> 
> -- 
> Pauli Virtanen
> 
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Very well. After a while the test hangs, Ctrl-C does nothing, so I end up using Ctrl-Z and kill to stop the python process. I assume the test is supposed to run in not too long on a Core i7; it takes about a minute on an older desktop machine (Core 2 quad).
 
I compiled using gcc and gfortran 4.6.0 build from homebrew-alt (I think - maybe setup.py dug up Apple's gcc). I suppose there's a theoretical possibility that there's an issue with the compiler? I'd like my scipy installation to be nice and bug-free, so I'll gladly help debug if I'm able to.

i-courant /tmp/paulanto % python -c 'import scipy;scipy.test()' 2>&1
Running unit tests for scipy
NumPy version 1.6.1
NumPy is installed in /usr/local/Cellar/python/2.7.2/lib/python2.7/site-packages/numpy
SciPy version 0.10.0b2
SciPy is installed in /usr/local/Cellar/python/2.7.2/lib/python2.7/site-packages/scipy
Python version 2.7.2 (default, Oct  9 2011, 18:03:13) [GCC 4.2.1 (Apple Inc. build 5666) (dot 3)]
nose version 1.1.2
............................................................................................................................................................................................................................K............................................................................................................/usr/local/Cellar/python/2.7.2/lib/python2.7/site-packages/scipy/interpolate/fitpack2.py:674: 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)
....../usr/local/Cellar/python/2.7.2/lib/python2.7/site-packages/scipy/interpolate/fitpack2.py:605: 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....../usr/local/Cellar/python/2.7.2/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)))
............................................................................................................................................................................................................................................................................................................................................................................................................................................/usr/local/Cellar/python/2.7.2/lib/python2.7/site-packages/scipy/io/wavfile.py:31: WavFileWarning: Unfamiliar format bytes
  warnings.warn("Unfamiliar format bytes", WavFileWarning)
/usr/local/Cellar/python/2.7.2/lib/python2.7/site-packages/scipy/io/wavfile.py:121: WavFileWarning: chunk not understood
  warnings.warn("chunk not understood", WavFileWarning)
....................................................................................F..FF......................................................................................................................................SSSSSS......SSSSSS......SSSS.....................FFF.........................................F....FF.......S............................................................................................................................................................................................................................................................K......................................................................................................................................................................................................SSSSS............S........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................SSSSSSSSSSS.........../usr/local/Cellar/python/2.7.2/lib/python2.7/site-packages/scipy/sparse/linalg/eigen/arpack/tests/test_arpack.py:103: RuntimeWarning: invalid value encountered in absolute
  ind = np.argsort(abs(reval))
FEEEEEEFEEEFEEEEEEEEEEEFEFEFEEEEEEEEFEEF/usr/local/Cellar/python/2.7.2/lib/python2.7/site-packages/scipy/sparse/linalg/eigen/arpack/tests/test_arpack.py:86: RuntimeWarning: divide by zero encountered in divide
  reval = 1. / (eval - sigma)
FEEEEEEFEEEFEEEEEEE/usr/local/Cellar/python/2.7.2/lib/python2.7/site-packages/numpy/core/fromnumeric.py:2296: RuntimeWarning: overflow encountered in multiply
  return round(decimals, out)
F............................................................EEEEEEEEEEEEEEEFEEEEEEEEEEEEE/usr/local/Cellar/python/2.7.2/lib/python2.7/site-packages/scipy/sparse/linalg/eigen/arpack/tests/test_arpack.py:96: RuntimeWarning: divide by zero encountered in divide
  reval = eval / (eval - sigma)
FEEE^C^C^C^Z
zsh: suspended  python -c 'import scipy;scipy.test()' 2>&1
i-courant /tmp/paulanto % kill %1i-courant /tmp/paulanto %
[1]  + terminated  python -c 'import scipy;scipy.test()' 2>&1