what are you trying to do? get mean values of thickenss in each parcellation? If it is an annotation file, then you can use mri_segstats with --annot. Run it with --help to get examples

On 2/27/17 8:09 PM, Julie Hall wrote:

Dear all, 

I would like to use the Gordon Parcellation as segmentation atlas for my subjects. 

I have warped this atlas into individual subject space.  Then I wanted to use mris_sample_parc to apply this parcallation, but I have a few questions.. 

1. Is this the right command to use? 
2. When I use this command, I get the following error: could not open translation file /Applications/freesurfer/cma_parcellation_colors.txt

I don’t have this color table, should I create one (and how?)? 

Thank you 

Julie 

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