Hi Heidi
can you give us the full screen output and exact command you are running?
And what shell are you using? In csh/tcsh you can have an env variable be
superseded with a set command. For example:
setenv SUBJECTS_DIR right
set SUBJECTS_DIR=wrong
will cause getenv to get wrong. Also, try specifying it explicitly on the
recon-all command line to avoid any of this type of problem
cheers
Bruce
On Sun, 29 Apr 2018, Jacobs, H
(NP) wrote:
External Email - Use Caution
Dear FreeSurfer,
I just installed FreeSurfer6 on my computer and tried to run a subject (license
file is set).
I sourced freesurfer and have set the subjects_dir.
However, when running the recon-all, I get the following error :
ERROR: cannot find /Applications/freesurferv6/subjects/S006
And running echo $SUBJECT_DIR gives me this output:
/Users/heidi/Desktop/tryout
Any suggestions what may be the problem?
Thank you
Heidi
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