didn't I respond to this earlier this week? the images appear to be binarized regions of interest and not whole (or ever partial) brain. To run the registration, you will need an actual brain. If you created the ROI from a brain image, then use that image to create the reg, then run vol2surf using that reg with the ROI as input
On 03/07/2017 03:02 PM, Redwan Maatoug wrote:
Hi experts,
I try to convert my volumetric nifti file to surface files.
My nifti volumetric file looks like : 1. screenshot I have first registered the volumetric file using bbregister with this command line : *bbregister --s fsaverage --mov segment_7.nii --reg segment_7.dat --t1 --init-coreg*
then I have used the following command line and the file looks like screenshot 1 attached : *tkregister2 --mov segment_7.nii --reg register7.dat --surf*
And after that, I have tried to convert my volumetric file to surface file with this command line :
*mri_vol2surf --src segment_7.nii --srcreg register7.dat --hemi lh --o ./segment_7-lh.nii --float2int round*
But with this command when I load the file with freeview it does not work and with tkregister the file is empty.
Or this one :
*mri_vol2surf --src segment_7.nii --srcreg register7.dat --hemi lh --o ./segment_7-lh.w --out_type paint --float2int tkregister*
But with this command I have this warning : Warning: all vertex values are zero
Could you please help me to convert my volumetric files because I am probably doing someting wrong. All my files come from an Atlas and I just need to convert them to surfaces files.
Thank you for your help, Redwan
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