[pymvpa] problem installing PyMVPA on ubuntu

[Michael Hanke]

Hi Greg,

On Tue, Apr 21, 2009 at 06:09:01PM -0400, Greg Detre wrote:
> hey you guys,
>
> per & i were playing with a direct comparison of PyMVPA and the matlab  
> MVPA toolbox, just to confirm that they gave similar results when fed  
> identical data.

Excellent! Regardless of the results, what you mind sharing the final
scripts. They would perfectly fit into

  http://www.pymvpa.org/matlab.html

and provide a simple user-focused comparison without having to blurb a
lot about all the technical differences.

> anyway, i've been having trouble getting it to work on an ubuntu machine  
> in the lab, and wanted to give you a heads-up.
>
> Ubuntu Intrepid 8.10
> Linux gyruss 2.6.27-11-generic #1 SMP Thu Jan 29 19:28:32 UTC 2009  
> x86_64 GNU/Linux
>
> per had suggested i use the latest version from michael's top-secret  
> underground repository:
>
> http://apsy.gse.uni-magdeburg.de/main/index.psp?sec=1&page=hanke/debian&lang=en

It should not be underground ;-)

BTW: I moved on to auto-generated pages:

  http://apsy.gse.uni-magdeburg.de/debian

or rather

  http://apsy.gse.uni-magdeburg.de/debian/html/pkgs/python-mvpa.html


> [i haven't tried the official intrepid repository version]

(which is typically outdated anyway)


> /usr/lib/python2.5/site-packages/shogun/Classifier.py in <module>()
>       9 """
>      10
> ---> 11 import _Classifier
>      12 import new
>      13 new_instancemethod = new.instancemethod
>
> ImportError: /usr/lib/python2.5/site-packages/shogun/_Classifier.so:  
> undefined symbol: clapack_dpotrf

Uaah. The infamous lapack. Since pymvpa does not deal with it directly,
there is little we can do about it. Looks like Ubuntu's shogun is not
linked properly. Which version are you using -- the offical one or some
backport.

Cheers,

Michael

-- 
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http://apsy.gse.uni-magdeburg.de/hanke
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