External Email - Use Caution
Hi Yixin,
Does this happen for all subjects, or only one?
Cheers,
/Eugenio
--
Juan Eugenio Iglesias
ERC Senior Research Fellow
Centre for Medical Image Computing (CMIC)
University College London
Research staff
Martinos Center for Biomedical Imaging
Massachusetts General Hospital
Research Affiliate
Computer Science and Artificial Intelligence Laboratory (CSAIL)
Massachusetts Institute of Technology
Lecturer on Radiology
Harvard Medical School
http://www.jeiglesias.com
From: <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Yixin Ma <yixinma9@gmail.com>
Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Date: Friday, 18 January 2019 at 11:06
To: "freesurfer@nmr.mgh.harvard.edu" <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Hippocampus subfield division error
External Email - Use Caution
Hi FreeSurfer experts,
I'm writing to ask about the hippocampus subfields division in FreeSurfer 6.0.
I got an error message as attached, could you please help me with which part might have gone wrong? This subject's other recon-all worked but not for hippocampus subfields division.
Thank you for your help.
Best regards,
Yixin
[ > In segmentSubjectT1_autoEstimateAlveusML at 325]
Reading contexts of file /usr/local/packages/freesurfer_v6.0.0/average/HippoSF/atlas/compressionLookupTable.txt
--------------
Making Lateral-nucleus map to reduced label 1
Making Paralaminar-nucleus map to reduced label 1
Making Basal-nucleus map to reduced label 1
Making Accessory-Basal-nucleus map to reduced label 1
Making Corticoamygdaloid-transitio map to reduced label 1
Making Central-nucleus map to reduced label 1
Making Cortical-nucleus map to reduced label 1
Making Medial-nucleus map to reduced label 1
Making Anterior-amygdaloid-area-AAA map to reduced label 1
--------------
Making alveus map to reduced label 2
Making Hippocampal_tail map to reduced label 2
Making HATA map to reduced label 2
Making fimbria map to reduced label 2
Making parasubiculum map to reduced label 2
Making hippocampal-fissure map to reduced label 2
--------------
Making Left-Cerebral-Cortex map to reduced label 3
--------------
Making Left-Cerebral-White-Matter map to reduced label 4
--------------
Making Left-Lateral-Ventricle map to reduced label 5
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Making Left-choroid-plexus map to reduced label 6
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Making Unknown map to reduced label 7
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Making Left-VentralDC map to reduced label 8
--------------
Making Left-Putamen map to reduced label 9
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Making Left-Pallidum map to reduced label 10
--------------
Making Left-Thalamus-Proper map to reduced label 11
--------------
Making Left-Accumbens-area map to reduced label 12
--------------
Making Left-Caudate map to reduced label 13
Error using segmentSubjectT1_autoEstimateAlveusML (line 348)
The vector of prior probabilities in the mesh nodes must always sum to one over all classes