Freesurfers,

I am trying to use a cortical label to label wm. I am using the following command line:

mri_aparc2aseg --s $patient --annot 8V1 –labelwm

And most of the time in most subjects this works, however sometimes the output file doesn’t label any wm with the 3000+N or 4000+N like it usually does. I have tried changing the -wmparc-dmax, -hypo-as-wm, -smooth_normals. Basically everything I could find but it won’t budge even though doing other labels in the same person works fine. Fyi: The original cortical label is also correctly place in the cortical ribbon.

Any ideas?

Please!

Thanks,

Sara Sims

Graduate Research Fellow

University of Alabama at Birmingham

Department of Psychology

205-975-4060

snolin@uab.edu