Thanks, Aura. 

What exact version of FreeSurfer are you using? I’m assuming it’s a development version, but from when? The results are indeed weird…

-- 

Juan Eugenio Iglesias

ERC Senior Research Fellow

Translational Imaging Group

University College London

http://www.jeiglesias.com

http://cmictig.cs.ucl.ac.uk/

From: <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of "Hurtado, Aura Maria" <AHURTADO@mgh.harvard.edu>
Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Date: Friday, 23 March 2018 at 05:28
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] Hippocampal Subfields Module, output error

Hi Eugenio, 

Thank you for replying so quickly to my lengthy message. I correct some of my statements,

1. Matlab 8.4 was used (not 8.2)

2. When I ran the cross-sectional subfield command, I did not get exit errors as I did with the longitudinal command (kvlGetOptimizer). I got output errors and warnings of non convergence in the log file. 

-I see your point. I mean the built-in hippocampal module (v10) worked when reconall was run with fs60 (hippoSf). When run independently, the hippocampal module (v21) exited with errors when using segmentHA_T1_long.sh, and the output was off when using segmentHA_T1.sh (this is better seen in pic 3). I hope this clarifies a bit. Please tell me if it doesn’t.

These are screenshots of the images output by jobs that exited without processing errors: