Dear Steve,

Can you please send us:

- The segmentation command you used for a sample subject

- A list of the files under the mri directory for that subject.

Cheers,

/Eugenio

Juan Eugenio Iglesias

Senior research fellow

CMIC (UCL), MGH (HMS) and CSAIL (MIT)

http://www.jeiglesias.com 

From: <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Steve Petersen <marfneuro@gmail.com>
Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Date: Wednesday, 11 December 2019 at 03:54
To: "freesurfer@nmr.mgh.harvard.edu" <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Hippocampal subfields: exporting results

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Dear Freesurfer experts,

I used the freesurfer dev version to estimate hippocampal subfields using mode B (additional scan). 

All have worked fine although when I tried to export the results I can not find the txt file created

This is the output

rmnlab1:~ neucoga$ quantifyHippocampalSubfields.sh HIPOAMYG HipoAmyg_results.txt /Applications/freesurfer/subjects/4001T1 

Gathering results from subjects in: 

   /Applications/freesurfer/subjects/4001T1 

Using the suffix name: 

   HIPOAMYG

And writing them to: 

   HipoAmyg_results.txt

Where is saved the HipoAmyg_results.txt file?? I have searched it and I can't find it...

Excuse me for this basic question.

Thanks in advance.

Best regards,