Uuuummm it seems it died unexpectedly, but there’s no error at the end of the log… are you sure that’s the complete file?
If not: did you get any other message on the screen when you tried to run this?
Cheers,
/Eugenio
--
Juan Eugenio Iglesias
ERC Senior Research Fellow
Centre for Medical Image Computing (CMIC)
University College London
http://www.jeiglesias.com
http://cmictig.cs.ucl.ac.uk/
From: <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Nikita Nogovitsyn <n.nogovitsyn@ucalgary.ca>
Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Date: Tuesday, 12 June 2018 at 17:52
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] freesurfer 6 hippocampal longitudinal processing workflow question, more LH than RH files
External Email - Use Caution
My apologies. Here is the long-hippocampal-subfields-T1.log https://drive.google.com/open?id=1VIeYRRBT1fNOeucsYSW2R1792g7u5JBD
External Email - Use Caution
Can you please send us the file long-hippocampal-subfields-T1.log, which you can find under the base subject, for one of the failing cases?
ERC Senior Research Fellow
Centre for Medical Image Computing (CMIC)
University College London
External Email - Use Caution
Thank you very much for your prompt reply.
I was trying to support the tread titled Re: [Freesurfer] freesurfer 6 hippocampal longitudinal processing workflow question, more LH than RH files
We received results from the cross-sectional segmentations - this version worked just great! All the recon-all procedures were managed via Linux based computing cluster. (We never had any perturbations in the performance
there; 1000+ subjects were processed on the cross-sectional pipeline without problems).
Once we triggered the longitude version - we faced multiple challenges. We observer a strange thing: once the longitudal version reached some undefined number of subjects (30-50 jobs) it only produces the left hemisphere
text file. The recon all log says there are no errors.
We were also not sure what would be the most appropriate way to employ the longitudal version given 3 time points of the observation.
Thank you very much for your input and help, Eugenio.
External Email - Use Caution
Could you please be a bit more specific about your problem? What issue are you exactly referring to?
Also, can you please send us the log file of the hippocampal subfields (rather than of recon-all)?
ERC Senior Research Fellow
Centre for Medical Image Computing (CMIC)
University College London
External Email - Use Caution
I would like to report to have the same issue. There were no errors in the log yet the majority of results missing right hemisphere.
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