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Dear FreeSurfer users

I have been running the longitudinal pipeline with hippocampus segmentation in FreeSurfer 7.1.1 on a computer cluster with a batch-system that regulates number of cores to use. There is though a problem when running segmentHA_T1.sh and segmentHA_T1_long.sh since they creates several LWPs. Setting export ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS=1 does lock a process to one core at a time, but NLWP is not 1, which is a problem on the cluster system. Does anyone know how to solve this problem?

Best regards
Micael

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Micael Andersson
Forskningsingenjör / Research engineer
Umeå centre for Functional Brain Imaging (UFBI), MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be http://www.ufbi.umu.se/
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Umeå universitet / University of Umeå


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