On 13 Feb 2017, at 16:41, Rizvi, Batool <br2499@cumc.columbia.edu> wrote:

Hi,

I'm having trouble getting any output from the hippocampal subfield analysis command. I entered in:

quantifyHippocampalSubfields.sh T1 hippo.txt /path/to/my/subjects/freesurferfolder

I tried both ways of having the environmental variable subjects directory defined to the freesurfer folder of the subjects (used *'s here for subjects and their freesurfer folder), but it still gives no output. 

It just says:

Gathering results from subjects in:

/path/to/my/subjects/freesurferfolder

Using the suffix name:

T1

And writing them to:

hippo.txt

What am I doing wrong here?

Thanks so much!

Batool 

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