Dear Daniel,
Is this Linux or MAC? It looks like a mix to me.
Cheers,
/Eugenio
--
Juan Eugenio Iglesias
Senior research fellow
CMIC (UCL), MGH (HMS) and CSAIL (MIT)
http://www.jeiglesias.com
From: <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Daniel Callow <ddcc2442@gmail.com>
Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Date: Sunday, 4 August 2019 at 15:19
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] segmentHA_T1.sh error
External Email - Use Caution
Hello,
When trying to run segmentHA_T1.sh I keep getting the following error log that I am having a lot of trouble debugging. Matlab 2014b is installed. Any help or guidance would be greatly appreciated!
------------------------------
USER dcallow
HOST compute-4-9.bswift.umd.edu
PROCESSID 8771
PROCESSOR x86_64
OS Linux
ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS 1
Linux compute-4-9.bswift.umd.edu 2.6.32-754.15.3.el6.x86_64 #1 SMP Thu Jun 13 22:49:44 EDT 2019 x86_64 x86_64 x86_64 GNU/Linux
------------------------------
freesurfer-darwin-OSX-ElCapitan-dev-20190326-01e71dc
setenv SUBJECTS_DIR /homes/dcallow/freesurfer_Tracy
cd /a/ha-nfs-1-ib/export/home/bswift/dcallow
/homes/dcallow/freesurfer_dev/bin/segmentHA_T1.sh HMN002
#--------------------------------------------
#@# Hippocampal Subfields processing (T1) left Sun Aug 4 15:08:35 EDT 2019
------------------------------------------
Setting up environment variables
---
DYLD_LIBRARY_PATH is .:/homes/dcallow/freesurfer_dev/MCRv84//runtime/maci64:/homes/dcallow/freesurfer_dev/MCRv84//bin/maci64:/homes/dcallow/freesurfer_dev/MCRv84//sys/os/maci64:/hom$
/homes/dcallow/freesurfer_dev/bin/run_segmentSubjectT1_autoEstimateAlveusML.sh: line 33: /homes/dcallow/freesurfer_dev/bin/segmentSubjectT1_autoEstimateAlveusML.app/Contents/MacOS/s$
@#@FSTIME 2019:08:04:15:08:35 run_segmentSubjectT1_autoEstimateAlveusML.sh N 13 e 0.07 S 0.00 U 0.00 P 15% M 1360 F 0 R 2250 W 0 c 13 w 171 I 40 O 0 L 0.12 0.68 0.88
@#@FSLOADPOST 2019:08:04:15:08:35 run_segmentSubjectT1_autoEstimateAlveusML.sh N 13 0.12 0.68 0.88
Linux compute-4-9.bswift.umd.edu 2.6.32-754.15.3.el6.x86_64 #1 SMP Thu Jun 13 22:49:44 EDT 2019 x86_64 x86_64 x86_64 GNU/Linux
T1 hippocampal subfields exited with ERRORS at Sun Aug 4 15:08:36 EDT 2019
Daniel Callow
PhD Student, Neuroscience and Cognitive Science
Exercise for Brain Health Lab
University of Maryland, College Park
443-254-6298