[pymvpa] Error from pymvpa2-prep-afni-surf

[Beau R. Sievers]

On Oct 13, 2015, at 4:57 AM, Nick Oosterhof <n.n.oosterhof at googlemail.com> wrote:

>>> On 12 Oct 2015, at 23:57, Beau R. Sievers <Beau.R.Sievers.GR at dartmouth.edu> wrote:
>>> 
>>> Hello, PyMVPA users,
>>> 
>>> I am running into an error (two, really) when running pymvpa2-prep-afni-surf to align the surfaces from FreeSurfer’s recon-all to my already-aligned anatomical images. It appears pymvpa2-prep-afni-surf tries to run 3dSurf2Vol with a non-existant option, “-surf” instead of “-surf_1D”, but correcting this apparent bug results in another error: 3dSurf2Vol rejects __tt.1D with a “bad surf data file” error.
>> On 13 Oct 2015, at 02:26, Feilong Ma <mafeilong at gmail.com> wrote:
>> 
>> My intuition is the ANFI version you're using is too old, or the PyMVPA version is too old, or the command pymvpa2-prep-afni-surf hasn't been updated for recent AFNI versions.  It seems the API of the PyMVPA command and that of AFNI is not compatible with each other.
> 
> Indeed, going through the AFNI source shows that on 9 Feb 2012 an option "sdata" was added to src/SUMA/SUMA_3dSurf2Vol.c at line 2178 [1]. Maybe your AFNI version is from before that date?
> Which version of AFNI are you using? Can you upgrade to the latest version and see if that fixes the issue?
> 
> [1] https://github.com/afni/afni/commit/7e0fc62d1b56a8cca8e83055f48453d0bf25bcd8#diff-b28d91a846dda39fcd3530431689e53cR983
> 

I can confirm that this fixes the issue. Thanks Nick and Feilong.

A warning for others: 3dSurf2Vol has an incorrect version string in the current version of AFNI, and I had to run the AFNI updating tools more than once to obtain a current 3dSurf2Vol binary. I don’t know if these two problems are related.