[SciPy-user] PPC 10.4 scipy installation problems

Sean McDaniel sean.m.mcdaniel@gmail....
Wed Nov 19 14:17:34 CST 2008


HI y'all,

I am having difficulty installing scipy on my PPC powerbook on os x 10.4. I
have followed the instructions on the web page, and have checked the forums
for possible fixes, but without sucess.

I am installing scipy for the convolution tools and need the signal
submodule to work correctly.

Installation notes:
  * I installed the latest fortran compiler from the att web site. I also
have g77 installed on the system.
  * gfortran version 4.2.3
  * GCC version - 4.0.1
  * I downloaded and installed the fftw package.
  * Installed numpy
  * Installed python:  python setup.py build_src build_clib
--fcompiler=gnu95 build_ext --fcompiler=gnu95 build
  * The first time I tried to run the import tests, it said I needed "nose."
This was installed.

Numpy and scipy import without problems, but for scipy, the the test fails
with a segmentation fault...
scipy.test('1','10')
---snip---
Test generator for parametric tests ... SKIP: Need to import PIL for this
test
/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/unittest.py:507:
DeprecationWarning: NumpyTestCase will be removed in the next release;
please update your code to use nose or unittest
  return self.suiteClass(map(testCaseClass, testCaseNames))
test1 (test_segment.TestSegment) ... ok
test2 (test_segment.TestSegment) ... Segmentation fault
---snip

...and importation of the signal submodule fails.
from scipy import signal
--snip---
ImportError:
dlopen(/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/scipy/integrate/_odepack.so,
2): Symbol not found: _s_stop
  Referenced from:
/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/scipy/integrate/_odepack.so
  Expected in: dynamic lookup
--snip---
Other installation attepts have generated similar dynamic lookup errors.

The numpy test generates a few errors. They are listed below...
numpy.test('1', '10')
---snip---
======================================================================
ERROR: test_ma.testta
----------------------------------------------------------------------
Traceback (most recent call last):
  File
"/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/nose/case.py",
line 182, in runTest
    self.test(*self.arg)
TypeError: testta() takes exactly 2 arguments (0 given)

======================================================================
ERROR: test_ma.testtb
----------------------------------------------------------------------
Traceback (most recent call last):
  File
"/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/nose/case.py",
line 182, in runTest
    self.test(*self.arg)
TypeError: testtb() takes exactly 2 arguments (0 given)

======================================================================
ERROR: test_ma.testtc
----------------------------------------------------------------------
Traceback (most recent call last):
  File
"/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/nose/case.py",
line 182, in runTest
    self.test(*self.arg)
TypeError: testtc() takes exactly 2 arguments (0 given)

======================================================================
ERROR: test_ma.testf
----------------------------------------------------------------------
Traceback (most recent call last):
  File
"/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/nose/case.py",
line 182, in runTest
    self.test(*self.arg)
TypeError: testf() takes exactly 1 argument (0 given)

======================================================================
ERROR: test_ma.testinplace
----------------------------------------------------------------------
Traceback (most recent call last):
  File
"/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/nose/case.py",
line 182, in runTest
    self.test(*self.arg)
TypeError: testinplace() takes exactly 1 argument (0 given)

======================================================================
ERROR: Ticket #396
----------------------------------------------------------------------
Traceback (most recent call last):
  File
"/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/numpy/core/tests/test_regression.py",
line 598, in test_poly1d_nan_roots
    self.failUnlessRaises(np.linalg.LinAlgError,getattr,p,"r")
  File
"/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/unittest.py",
line 320, in failUnlessRaises
    callableObj(*args, **kwargs)
  File
"/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/numpy/lib/polynomial.py",
line 1027, in __getattr__
    return roots(self.coeffs)
  File
"/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/numpy/lib/polynomial.py",
line 180, in roots
    roots = _eigvals(A)
  File
"/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/numpy/lib/polynomial.py",
line 38, in _eigvals
    return eigvals(arg)
  File
"/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/scipy/linalg/decomp.py",
line 478, in eigvals
    return eig(a,b=b,left=0,right=0,overwrite_a=overwrite_a)
  File
"/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/scipy/linalg/decomp.py",
line 150, in eig
    a1 = asarray_chkfinite(a)
  File
"/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/numpy/lib/function_base.py",
line 706, in asarray_chkfinite
    raise ValueError, "array must not contain infs or NaNs"
ValueError: array must not contain infs or NaNs

======================================================================
FAIL: check_testUfuncRegression (test_ma.TestUfuncs)
----------------------------------------------------------------------
Traceback (most recent call last):
  File
"/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/numpy/core/tests/test_ma.py",
line 692, in check_testUfuncRegression
    self.failUnless(eqmask(ur.mask, mr.mask))
AssertionError

----------------------------------------------------------------------
---snip---

Suggestions?

Thank you,

Sean




-- 
----------------------------------------------------
Sean McDaniel
Graduate Assistant - NSCL
work: mcdaniel@nscl.msu.edu
personal: sean.m.mcdaniel@gmail.com
-----------------------------------------------------
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