Hello,
My input to freesurfer is:
mri_surf2surf
--cortex --fwhm-src 5 --noreshape --hemi rh --tval [$output file] --sval
[$input file] --srcsubject [$subject id] --trgsubject fsaverage --tfmt nii
When I reopen the resulting image with Nibabel, the dimensions are 27307
x 1 x 6 x 296. While 296 is the time axis, I was hoping to get 27307*6 =
163842 vertices.
I have replaced '--noreshape' with '--reshape', '--reshape_factor=6'
and the bash output looks proper:
121010-16:49:28,430 interface INFO:
stdout 2012-10-10T16:49:28.429912:Saving target data
121010-16:49:28,430 interface INFO:
stdout 2012-10-10T16:49:28.429912:Reshaping 6 (nvertices = 163842)
121010-16:49:28,430 interface INFO:
stdout 2012-10-10T16:49:28.429912:Saving to [$output file]
However, it does not change the resulting image.
I have also tried other file types that are not 'nii', like 'mgh', but
this does not help either.
Please advise?
Also, I could easily make a work-around, and reshape the image from
a(27307, 1, 6, 296) to b(163842, 1, 296) in FORTRAN (column-major)
order. I.E.: 0~27306 then add the next set 27307~54613. If I do this,
would the original vertex map be preserved?
Thank you!
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