The error upon executing "suma -spec sl.dset" is: Error SUMA_Read_SpecFile: Your spec file contains uncommented gibberish: <AFNI_dataset Please deal with it. Error SUMA_Engine: Error in SUMA_Read_SpecFile.
I followed the tutorial on how to generate this so I'm not sure if this is a bug or maybe a version problem. On Thu, Jul 23, 2015 at 11:38 AM, Nick Oosterhof < n.n.ooster...@googlemail.com> wrote: > > > On 23 Jul 2015, at 16:47, John Baublitz <jb...@bu.edu> wrote: > > > > Thank you for the quick response. I tried outputting a surface file file > before using both niml.write() and surf.write() as my lab would prefer to > visualize the results on the surface. I mentioned this in a previous email > and was told that I should be using niml.write() and visualize using SUMA. > I decided against this because not only would it fail to open with our > version of SUMA (I can include the error if that would be helpful) > > Indeed, that would be helpful. > > > but I have found no evidence that .dset files are compatible with > FreeSurfer. My lab has a hard requirement that whatever we are outputting > from the analysis must be able to be visualized in FreeSurfer. Is there any > way to output a FreeSurfer-compatible surface file using PyMVPA? > > Not at the moment, but it would be nice to support GIFTI. Currently > surface anatomy can be exported as GIFTI, but there is no support currently > for functional files. I’ve added an issue [1], so it may be added in the > future. > > > If not, is there a utility to convert from SUMA surface files to > FreeSurfer surface files included in PyMVPA? > > ConvertDset (included with AFNI) can convert between NIML and GIFTI, and > mris_convert (included with Freesufer) can convert between GIFTI and a > variety of other file formats used in FreeSurfer. > > > [1] https://github.com/PyMVPA/PyMVPA/issues/347 > _______________________________________________ > Pkg-ExpPsy-PyMVPA mailing list > Pkg-ExpPsy-PyMVPA@lists.alioth.debian.org > http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/pkg-exppsy-pymvpa >
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