Dear Eugenio,
I had to run the hippocampal subfield segmentation analysis in Freesurfer v6 manually by running segmentSF_T1.sh program. When I call it through recon-all, it only processed the left hemisphere but not the right. The issue is that running segmentSF only took 10 min per hemisphere. I didn't use multicores. Although the analysis resulted in all the files correctly, I am just concerned if running this manually completed the analysis prematurely.
Sincerely, Jiook ᐧ
Hi Jiook, That is a bit weird. What was the error that you got on the left hemisphere? In any case, 10 mins sounds about right. Does the output segmentation look ok? Cheers, Eugenio
Juan Eugenio Iglesias
Honorary Senior Research Associate Translational Imaging Group University College London and Postdoctoral researcher BCBL
http://www.jeiglesias.com http://cmictig.cs.ucl.ac.uk/
www.bcbl.eu
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From: "Jiook Cha" cha.jiook@gmail.com To: "Eugenio Iglesias" e.iglesias@bcbl.eu, "Freesurfer support list" freesurfer@nmr.mgh.harvard.edu Sent: Saturday, May 21, 2016 1:33:59 PM Subject: hippocampal subfields analysis took 10 min
Dear Eugenio,
I had to run the hippocampal subfield segmentation analysis in Freesurfer v6 manually by running segmentSF_T1.sh program. When I call it through recon-all, it only processed the left hemisphere but not the right. The issue is that running segmentSF only took 10 min per hemisphere. I didn't use multicores. Although the analysis resulted in all the files correctly, I am just concerned if running this manually completed the analysis prematurely.
Sincerely, Jiook ᐧ
freesurfer@nmr.mgh.harvard.edu
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Eugenio Iglesias -
Jiook Cha