Dear Alessio,
You need to request approximately 16GB of RAM when you submit your jobs to the cluster.
Cheers,
/Eugenio
Juan Eugenio Iglesias
Senior research fellow
CMIC (UCL), MGH (HMS) and CSAIL (MIT)
From: <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of "alessioproposito@libero.it" <alessioproposito@libero.it>
Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Date: Thursday, December 17, 2020 at 12:17
To: "freesurfer@nmr.mgh.harvard.edu" <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] ERROR HC subfield segmentation_FS7.1.1
External Email - Use Caution
Dear FreeSurfer Developers,
I would like to run the Hippocampus subfields segmentation on Freesurfer 7.1.1. I am working on a HCP cluster with CentOS 7 (Core). Before running the segmentation on my data, I first tried to run the segmentation on your fully recon-ed
subject Bert typing 'segmentHA_T1.sh bert'. Unfortunately the process stopped after one minute and it reported the following error:
Out of memory. Type HELP MEMORY for your options.
Error in segmentSubjectT1_autoEstimateAlveusML (line 210)
I've searched the list and no similar errors have been reported. Also, I have attached the hippocampal-subfields-T1.log file in case it's of any use.
1) FreeSurfer version: freesurfer-linux-centos7_x86_64-7.1.1-20200723-8b40551
2) Platform: CentOS Linux 7 (Core)
3) Kernel: Linux 4.19.94-300.el7.x86_64
Does anyone have any suggestions on how this can be fixed?
Thank very much you in advance!
Kind Regards,
Alessio