Hi Andrew,

Yes, we are using FS 6.0 and I think that is correctly sourced in MATLAB environment. I used the same commands that we are using in other Mac workstation where all works fine. The commands used to source freesurfer in Matlab were these:

bash_path=getenv ('PATH');

setenv( 'PATH',[bash_path,':/Applications/freesurfer',':/Applications/freesurfer/bin']);

setenv FREESURFER_HOME /Applications/freesurfer

setenv SUBJECTS_DIR /Applications/freesurfer/subjects

How can I set the DYLD_LIBRARY_PATH?

Thanks in advance.

Best,

El mié., 12 feb. 2020 a las 1:15, Hoopes, Andrew (<AHOOPES@mgh.harvard.edu>) escribió:

If I understand correctly, you're having trouble running freesurfer binaries from within matlab, right? Is freesurfer fully sourced in your MATLAB environment? I’m guessing this is an issue with your DYLD_LIBRARY_PATH not being set, but it's possible there are other issues going on. You should check to see if the DYLD_LIBRARY_PATH environment variable in your MATLAB shell matches what you see in the terminal after sourcing freesurfer. Also, are you using 6.0?

Best,
Andrew

________________________________________
From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Miguel Ángel Rivas Fernández <miguelrivasfdez@gmail.com>
Sent: Friday, February 7, 2020 6:17 AM
To: Freesurfer support list
Subject: [Freesurfer] freesurfer error in matlab

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Dear Freesurfer devs,

I am trying to run FreeSurfer in Matlab and I received the following error message

dyld: lazy symbol binding failed: Symbol not found: ___emutls_get_address
Referenced from: /Applications/freesurfer/bin/../lib/gcc/lib/libgomp.1.dylib
Expected in: /usr/lib/libSystem.B.dylib

I tried to fix this error disabling the SIP but this did not work. Maybe could be due to the gcc compiler?

Any help would be appreciated

Thanks in advance

Best regards,

--
Miguel Ángel Rivas Fernández

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