External Email - Use Caution
Hello,
Can you please send the full terminal output from the 'segmentHA_T1.sh subj01'
command?
Best,
Jackson
________________________________
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Mirsol Choi
<mir...@ualberta.ca>
Sent: Monday, October 9, 2023 8:21 PM
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Hippocampus Segmentation Troubleshoot - Matlab crash
External Email - Use Caution
Hi there,
I am a Master's student who is looking to segment the hippocampus and analyze
diffusion data of the segments.
I am trying to utilize the segmentation function with this command:
segmentHA_T1.sh subj01
But I am met with this error saying that Matlab has crashed.
The crash log is attached to this email.
I have freesurfer version 7.1.1, running on MacOs 11.7.10.
I have followed your website instructions to download Matlab R2014b.
Following the installation process of Matlab, I was met with this message:
Installing Product: MATLAB Compiler Runtime - Core 8.4
(Oct 08, 2023 11:29:15) Installing Product: MATLAB Compiler Runtime - GPU 8.4
(Oct 08, 2023 11:29:21) Notes:
On the target computer, append the following to your DYLD_LIBRARY_PATH
environment variable:
/var/folders/zz/zyxvpxvq6csfxvn_n0000000000000/T/tmp.aMmBemHB/install-target/v84/runtime/maci64:/var/folders/zz/zyxvpxvq6csfxvn_n0000000000000/T/tmp.aMmBemHB/install-target/v84/sys/os/maci64:/var/folders/zz/zyxvpxvq6csfxvn_n0000000000000/T/tmp.aMmBemHB/install-target/v84/bin/maci64:
(Oct 08, 2023 11:29:21) Exiting with status 0
(Oct 08, 2023 11:29:21) End - Successful.
Finished
R2014b installed successfully in /Applications/freesurfer/7.1.1/MCRv84
And so I have appended the path using this code into my bashrc profile: export
DYLD_LIBRARY_PATH=$DYLD_LIBRARY_PATH:/var/folders/zz/zyxvpxvq6csfxvn_n0000000000000/T/tmp.aMmBemHB/install-target/v84/runtime/maci64:/var/folders/zz/zyxvpxvq6csfxvn_n0000000000000/T/tmp.aMmBemHB/install-target/v84/sys/os/maci64:/var/folders/zz/zyxvpxvq6csfxvn_n0000000000000/T/tmp.aMmBemHB/install-target/v84/bin/maci64
I am wondering if I can get some help with running the hippocampus segmentation
protocol .
Thank you so much for your time, I greatly appreciate your support.
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