Dear Alexandre, It seems that problem is that you need the latest dev version to use this feature. Cheers, /Eugenio
-- Juan Eugenio Iglesias ERC Senior Research Fellow Translational Imaging Group University College London http://www.jeiglesias.com http://cmictig.cs.ucl.ac.uk/ From: Alexandre Obert <obert.alexan...@gmail.com> Date: Thursday, 26 October 2017 at 16:31 To: "freesurfer@nmr.mgh.harvard.edu" <freesurfer@nmr.mgh.harvard.edu>, "Iglesias Gonzalez, Eugenio" <e.igles...@ucl.ac.uk> Subject: Re: freesurfer errors-windows bash Dear Eugenio, The freesurfer version commands tells me that I run the freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c version. Before using segmentHA_T1.sh command, I run the recon-all -all -s bert one and it worked. Of course, recon-all also worked, telling be how to use it properly. Regards, Alexandre 2017-10-26 17:08 GMT+02:00 Alexandre Obert <obert.alexan...@gmail.com<mailto:obert.alexan...@gmail.com>>: Dear all, I'm would like to run a hippocampal segmentation on my data. However, I'm a beginner with freesurfer thus, I juste try to run the commands with subject training data. I first try to run commands following the recent development (https://surfer.nmr.mgh.harvard.edu/fswiki/HippocampalSubfieldsAndNucleiOfAmygdala). However, terminal says that the command segmentHA.sh doesn't exist. I guess that it could be linked to the fact that I used bash in Windows but I can't find a way to check this..; Any idea ? Regards, Alexandre
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