On Jul 28, 2022, at 18:15, Makenna B McGill <makennamcgill@utexas.edu> wrote:

Hi FreeSurfer Developers,

I'm trying to run TRACULA in FreeSurfer v7.3 on OS Monterey.

I was unable to download R2014b Runtime on my newer OS, so instead of the segmentThalamicNuclei.sh script, I tried running the newer segmentation tool segment_subregions thalamus (https://surfer.nmr.mgh.harvard.edu/fswiki/SubregionSegmentation).

This was successful, but trac-all looks for the ThalamicNuclei.v12.T1.FSvoxelSpace.mgz file, whereas the subregion segmentation produces the file ThalamicNuclei.FSvoxelSpace.mgz.

I'm wondering two things: (1) is the new segmentation tool compatible with trac-all (the wiki says the results will be very close but not identical), and (2) if so, would it be appropriate to rename/link the file so that trac-all can find it, as this user did with the ThalamicNuclei.v13 file (https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg73065.html)?

Thank you in advance for any suggestions you might have, and please let me know if anything needs clarified.

Best,

Makenna

Makenna McGill (she/her)

Doctoral Student in Clinical Psychology

University of Texas at Austin

_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer