External Email - Use Caution
Hello FreeSurfer Developers,
I'm attempting to segment thalamic nuclei, as described by the tutorial page (https://secure-web.cisco.com/1F9Cs4OMcQ2PV75K6Q0sKfyHoo5UBJNkIWoWVANuievmgb7...), but I got an Matlab routine error. I’t happened after the upgrade to MacOS Big Sur and I guess it is a compatibility issue. I tried also to re-install the routine (by fs_install_mcr R2014b ) and to run the process by docker container but the process ended with the same error. (Obviously, I got the same error also trying the hippocampus&amygdala module).
ERROR:
MATLAB is exiting because of fatal error /Applications/freesurfer/bin/run_SegmentThalamicNuclei.sh: line 33: 3322 Killed: 9 /Applications/freesurfer/bin/SegmentThalamicNuclei.app/Contents/MacOS/SegmentThalamicNuclei subjHC001/ /Applications/freesurfer/subjects 0.5 /Applications/freesurfer/average/ThalamicNuclei/atlas/AtlasMesh.gz /Applications/freesurfer/average/ThalamicNuclei/atlas/AtlasDump.mgz /Applications/freesurfer/average/ThalamicNuclei/atlas/compressionLookupTable.txt 0.05 L-BFGS v12 '/Applications/freesurfer/bin/fs_run_from_mcr /Applications/freesurfer/bin/' 1 0 Darwin iMac-di-Daniela.local 20.5.0 Darwin Kernel Version 20.5.0: Sat May 8 05:10:33 PDT 2021; root:xnu-7195.121.3~9/RELEASE_X86_64 x86_64
I've searched the list and I didn’t found a way to fix it. Does anyone have any thoughts on how to trouble-shoot this one? Also, Ive attached the thalamic-nuclei-mainFreeSurferT1.log in case it's of any use.
Thanks in advance
Best regards, Daniela