Hi, again (I've emailed once before),
I am trying to test my freesurfer installation and everything goes fine (tksurfer, qdec, etc). However, once I get to:
recon-all -s bert -autoreco1
i get:
FREESURFER_HOME: Undefined variable.
However, I believe I've set it up properly with:
setenv FREESURFER_HOME Desktop/freesurfer source $FREESURFER_HOME/SetUpFreeSurfer.csh
And I get back:
Setting up environment for FreeSurfer/FS-FAST (and FSL) FREESURFER_HOME Desktop/freesurfer FSFAST_HOME Desktop/freesurfer/fsfast FSF_OUTPUT_FORMAT nii SUBJECTS_DIR Desktop/freesurfer/subjects MNI_DIR Desktop/local/freesurfer/mni
With no errors.
When I give the command:
echo $FREESURFER_HOME
I also get back:
Desktop/freesurfer
Any suggestions?
Thanks, Carl