Making Matlab visible to freesurfer?

[imgettintilted]

Apologies in advance for such a beginner question-I have 0 coding experience and unsure where else to look for help.

I'm on freesurfer 7.4.1 running on Ubuntu 22. I'm trying to run LGI commands but it always gives me the error:

ERROR: Matlab is required to run mris_compute_lgi!
Command exited with non-zero status 1

I've tried using the command cd <FreeSurferRootDirectory> && ln -s <MatlabRootDirectory> MCRv84 after downloading Matlab 2014b. I also tried using the runtime on the wiki fs_install_mcr R2014b with no success. I've had no issues downloading Matlab in either case.

I simply can't figure out why Matlab isn't visible to freesurfer, and any help figuring out where to start with this would be very much appreciated.

[stebo85]

This is a tricky one. In contrast to most freesurfer tools that run with the matlab runtime environment, mris_compute_lgi needs a full matlab license. Could you run the generated matlab files in a stanalone matlab instead of using the mris_compute_lgi tools?

[imgettintilted]

I have an academic license and I was able to download the full 2014b package, would that be considered a full license?

I tried running compute_lgi ('subj ID', 'lh') in matlab, but it doesn't seem to recognize the command. Do I also need the runtime installed on freesurfer for me to be able to run the lgi commands in standalone matlab?

[stebo85]

Are you running this inside Neurodesk?

[imgettintilted]

Ah, I am not. Sorry about that, I thought this was a general thread for freesurfer. Thanks for responding