[Freesurfer] segmentHA_T2.sh hippo stream fails and doesn't recon both side, using 2019-02-03 dev version, centos6

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Hi Freesurfer,

I’m running the dev version of freesurfer (cent06 from website, dated 2019-02-03) after seeing the (volumesAmygdala.txt error) message thread of

https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg59610.html

But it still fails.

Previously, I ran the recon-all using stable cent06, and then tried the new hippo pipeline with the command:

export SUBJECTS_DIR=/erato/data/WelshData/MHD19/Freesurfer/SubjectsDerivedUCLA segmentHA_T2.sh -s AD_CS_8_23_04 mri/hippo.mgz hippo 1

I’m attaching the log file from the stream.

Robert

------------------------------ Robert Welsh, PhD

Associate Professor Department of Psychiatry University of Utah robert.c.welsh@utah.edu