[pymvpa] Surface-based Searchlight?

[Matthias Ekman]

Hi,

it seems that upcoming pymvpa2 release is going to include a long list of
exciting new features including Surface-based searchlight analysis.

While still under development [1] I couldn't wait but having a first look.
I hope you guys don't mind me asking some simple questions.

I'm currently trying to convert my Freesurfer (FS) surfaces to afni; the
provided scrip ``prep_afni_surf`` is very helpful.

However, in my case it fails as recent FS (v5.3) doesn't seem to produce the
COR files anymore? ("grep: COR-.info: No such file or directory"). Running
``@SUMA_Make_Spec_FS`` with the "-use_mgz" flag however works. Maybe this
is a more sensible default, as the FS wiki marks COR as deprecated [2].

Q1: Do I understand correctly that the EPI image must be coregistered to
the anatomical before running ``prep_afni_surf`` (i.e. afni is not doing
that 'magically' otherwise)?

Q2: How would one save/transform the results back to a volume format? E.g.
the ``fn = 'ico%d-%d_%sh_%dvx.niml.dset' % (lowres_ld, highres_ld, hemi,
radius)`` in the surface-based Searchlight example [3]. Afni seems to have
"3dAFNItoNIFTI" but that doesn't seem to work with SUMA files; I'm a bit
lost here.


Thanks in advance,
 Matthias

[1] https://github.com/PyMVPA/PyMVPA/pull/119
[2] http://freesurfer.net/fswiki/FsTutorial/CorFormat
[3] http://www.pymvpa.org/examples/searchlight_surf.html
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