oh, sorry, you are correct. I guess you need to edit the aseg.presurf.mgz since that is what mri_fill is given as a segmentation. Sorry for the mistake Bruce
On Tue, 26 Sep 2017, Gabor Perlaki wrote: > If I accurately understand the recon-all script, then -noaseg sets UseAseg=0, > but > "autorecon2-noaseg" is a different flag, which only sets the following things. > > > case "-autorecon2-cp": > case "-autorecon2-noaseg": > case "-autorecon2-wm": > set DoNormalization2 = 1; > set DoSegmentation = 1; > set DoFill = 1; > set DoTessellate = 1; > set DoSmooth1 = 1; > set DoInflate1 = 1; > set DoQSphere = 1; > set DoFix = 1; > set DoMaskBFS = 1; > set DoWhiteSurfs = 1; > set DoSmooth2 = 1; > set DoInflate2 = 1; > set DoSegStats = 0; > set DoCurvStats = 1; > breaksw > > Best Regards, > > Gabor > > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
