Hi experts,
I'm running the commands from recon-all -autorecon3 from a script file and I'm getting the following errors
mri_segstats: unknown option --empty mri_aparc2aseg: unknown option --ribbon
From the help files, mri_segstats has option --nonempty and mri_aparc2aseg has an option --new-ribbon. I suspect that the recon- all steps are slightly out of date.
So what was option --empty did in mri_segstats, is it equivalent or opposite of --nonempty?
Also I understand that mri_aparc2aseg --new-ribbon will by default use a ribbon.mgz file, i however have my own ribbon file which I created based on my own template. How can I feed myribbon.mgz to mri_aparc2aseg?
Thanks for your help Larissa