Hi Akram,

I'm working on the huge ventricle problem. We are also getting ready to release a version that should fix the crossing-the-midline problem, if that's what you're experiencing.

Bruce On Mon, 17 Jul 2006, Akram Bakkour wrote:

Hi all,

I've been having trouble with these two brains with huge ventricles, first the aseg failed, and the ventricles didn't get filled automatically, so I filled them manually and ran recon-all -autorecon2-wm but my surfaces were off and there was a blatant hemispheric devision problem with the surfaces, so I added a corpus callosum seed point using recon-all -autorecon2-wm -cc-crs <X Y Z> but that didn't work. I ran out of fixes to try, any suggestions!? Thanks!

On machine blakey

source /usr/local/freesurfer/nmr-std-env setenv SUBJECTS_DIR /space/banzai/3/users/efenster/CLINDEM_processing/

which mri_convert /usr/local/freesurfer/stable/bin//mri_convert

cd $SUBJECTS_DIR

recon-all -autorecon2-wm -cc-crs 126 98 97 -subjid 06142006_4TTclindem03 subjid 06142006_4TTclindem03

recon-all -autorecon2-wm -cc-crs 129 113 128 -subjid 06212006_4TTclindem04 subjid 06212006_4TTclindem04

check output: foreach s (06142006_4TTclindem03 06212006_4TTclindem04) tkmedit 06142006_4TTclindem03 lh.white -aux wm.mgz -aux-surface rh.white end

Notice the hemispheric devision problem with the surfaces. Any suggestions as to how to fix this!? Thanks! Akram. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer