[pymvpa] PyMVPA surface searchlight
John Baublitz
jbaub at bu.edu
Tue Jun 30 19:02:23 UTC 2015
Thank you for the quick response! I met with my lab today and they are
looking to have the option of either outputting a NIftI file, which was
indeed solved using 'volume' for output_modality in the query engine OR,
preferably, outputting a FreeSurfer-compatible surface file with the PyMVPA
searchlight results as we are looking to visualize it ultimately on the
surface. The former is working with your suggestion. The latter is not
working. I am using surf.write() with an .asc extension for the output file
but when passing in the surface-based searchlight output dataset, it errors
out while trying to convert it to a surface. Here is the error:
/projectnb/somerslab/john/python/PyMVPA/mvpa2/support/nibabel/surf.pyc in
write(fn, s, overwrite)
2222 if fn.endswith('.asc'):
2223 from mvpa2.support.nibabel import surf_fs_asc
-> 2224 surf_fs_asc.write(fn, s, overwrite=overwrite)
2225 elif fn.endswith('.gii'):
2226 if not fn.endswith('.surf.gii'):
/projectnb/somerslab/john/python/PyMVPA/mvpa2/support/nibabel/surf_fs_asc.pyc
in write(fn, surface, overwrite, comment)
119 s.append(comment)
120
--> 121 nv, nf = surface.nvertices, surface.nfaces,
122 v, f = surface.vertices, surface.faces
123
AttributeError: 'Dataset' object has no attribute 'nvertices'
Any suggestions? If you need to take a look at the code, again the updated
code is accessible at this link:
https://github.com/jbaublitz/somerslab-mvpa-wrapper/blob/master/surface_searchlight.py
Thank you so much for your quick and comprehensive support!
John
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.alioth.debian.org/pipermail/pkg-exppsy-pymvpa/attachments/20150630/39cea5b4/attachment.html>
More information about the Pkg-ExpPsy-PyMVPA
mailing list