Hi Ilana The double slashes shouldn't matter. What does it say when you give
tkmedit bert brainmask.mgz in the freesurfer environment ( i.e. after you run SetUpFreeSurfer.csh ) Krish On 12/14/09 5:27 PM, Ilana Hairston wrote: > Hi there, > I moved my data to a new computer with Freesurfer installed. > When i run the SetUpFreeSurfer.csh (or .sh for that matter) i get a > strange configuration: > > Setting up environment for FreeSurfer/FS-FAST (and FSL) > FREESURFER_HOME /usr/local/freesurfer/ > FSFAST_HOME /usr/local/freesurfer//fsfast > FSF_OUTPUT_FORMAT nii > SUBJECTS_DIR /usr/local/freesurfer//subjects > MNI_DIR /usr/local/freesurfer//mni > FSL_DIR /usr/local/fsl > > > note the double slashes on SUBJECTS_DIR, FSFAST_DIR, and MNI_DIR. > > needless to say freesurfer can't find my data. > > I inspected the setup files and they don't have typo in them. > > what should i do? > > thanks > ilana > > > -- > ******************************* > Ilana Hairston ,PhD > Research Assistant Professor > 4250 Plymouth Rd. > Psychiatry Department, Addiction Research Center > University of Michigan, Ann Arbor MI 48109-2700 > Tel: 734-232-0232; Mobile: 650-906-8449 > ******************** > Sentimental Insomnia and Nostalgia Disorders Sciences > > ******************** > > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
