Hi Julie, can you send us the last couple of hundred or so lines of the recon-all.log? You can generate this with tail -n 200 recon-all.log
cheers, Bruce On Mon, 15 Feb 2010, Julie McEntee wrote: > Hello, > > The initial command to recon-all: > > recon-all -i $FREESURFER_HOME/subjects/PPG1156/1156MPRage.nii.gz -autorecon1 > -autorecon2 -subjid MGZ > > exited with errors during SubCort Seg. At this point, I am attempting to > obtain subcortical segmentation only (aseg.mgz, wm.mgz, aseg.stats), but > would like to eventually run entire recon. I previosly tried to attach the > recon-all.log, but the file is too large (>200KB). > > I checked the tal transform and skullstrip- both looked OK. The scan is of a > subject with Huntington's Disease so the ventricles are a bit enlarged and > there is significant asymmetrical atrophy such that at least one area of > brainmask.mgz was labeled as 57 (Right-Lesion). Also, there seems to be > intensity variations (artifact?) A-P across cortex on slices around mid-line > in sagittal view. > > Any ideas? Please let me know if you'd like me to upload any/all files. > > Thank you for your help, > > Julie > > Julie E. McEntee, M.A., C.C.R.P. > Senior Research Program Coordinator > Department of Psychiatry- Neuroimaging > Johns Hopkins University School of Medicine > 600 N. Wolfe St./ Phipps 300 > Baltimore, MD 21287 > Phone: 410-502-0468 > Fax: 410-614-3676 > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
