[pymvpa] PyMVPA import error

[James M. Hughes]

Unfortunately shogun is a dependency of pymvpa in macports and so it  
won't let me remove it.

I tried before to activate another version of pymvpa that doesn't have  
shogun as a dependency, but strangely got the same error, although it  
occurred in a slightly different place:

/opt/local/lib/python2.5/site-packages/mvpa/clfs/svm.py in <module>()
      52
      53 if externals.exists('shogun'):
---> 54     from mvpa.clfs import sg
      55     SVM = sg.SVM
      56     #if not 'LinearCSVMC' in locals():

/opt/local/lib/python2.5/site-packages/mvpa/clfs/sg/__init__.py in  
<module>()
      15     debug('INIT', 'mvpa.clfs.sg')
      16
---> 17 from mvpa.clfs.sg.svm import SVM
      18
      19 if __debug__:

/opt/local/lib/python2.5/site-packages/mvpa/clfs/sg/svm.py in <module>()
      26
      27 # Rely on SG
---> 28 import shogun.Features
      29 import shogun.Classifier
      30 import shogun.Regression

/opt/local/Library/Frameworks/Python.framework/Versions/2.5/lib/ 
python2.5/site-packages/shogun/Features.py in <module>()
      30     del swig_import_helper
      31 else:
---> 32     import _Features
      33 del version_info
      34 try:

ImportError: dlopen(/opt/local/Library/Frameworks/Python.framework/ 
Versions/2.5/lib/python2.5/site-packages/shogun/_Features.so, 2):  
Symbol not found: ___gmpn_sub_nc
   Referenced from: /Applications/MATLAB_R2007b/bin/maci//libgmp.3.dylib
   Expected in: flat namespace

On Oct 15, 2010, at 6:23 PM, Yaroslav Halchenko wrote:

> well -- has something to do with shogun build on your box and may be  
> its
> Matlab (khe khe) bindings
>
> Just remove shogun altogether (unless you are using it) and then
> PyMVPA should work fine, just without shogun.  Otherwise you would  
> need
> to assure correct install of shogun.  Alternatively you could use
> NeuroDebian VM.
>
> On Fri, 15 Oct 2010, James M. Hughes wrote:
>> ImportError: dlopen(/opt/local/Library/Frameworks/Python.framework/
>> Versions/2.5/lib/python2.5/site-packages/shogun/_Features.so, 2):
>> Symbol not found: ___gmpn_sub_nc
>>  Referenced from: /Applications/MATLAB_R2007b/bin/maci//libgmp. 
>> 3.dylib
>>  Expected in: flat namespace
> -- 
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