Hi, there,

I am running the hippocampal subfield segmentation on a high resolution T2 data that only covers the bilateral hippocampus and nearby temporal lobe areas. 

Following the instruction on this webpage:

http://ftp.nmr.mgh.harvard.edu/fswiki/HippocampalSubfieldSegmentation

I used the command 

recon-all -s my subject -all -hippo-subfields

It was running well, however, it halted/paused after it displayed the following information:"final transformation (x=..,yr=..,zr=..) and a 4x4 matrix".

For a week it is not going anywhere and not producing any output.

The computer I was running it on had sufficient computational resources and a Fedora linux system. It does not seem to be related to the configuration of the computer.

Has anyone ever encountered this problem?? Any diagnostic advice will be appreciated!!

-Irene

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Juan Eugenio Iglesias, PhD
http://www.jeiglesias.com
iglesias@nmr.mgh.harvard.edu
Athinoula A. Martinos Center for Biomedical Imaging
149 Thirteenth Street, Suite 2301
Charlestown, Massachusetts 2129
U.S.A.