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I am trying to test the LME model created by Bernal using mass-univariate data. Although my entire dataset has about 40 participants with pre- and post-season scans, I am trying to test the pipeline with the data from one subject. On my Mac, I am unable to run “make_average_subject” for the test subject successfully without error. The error message is “ERROR: creating directory / mri_average_surface failed”. Freesurfer is able to create a directory within the subject folder on my desktop (study_average) but can’t make a “surf” folder within that. When I run sudo before this command, the error is “FREESURFER_HOME: undefined variable” even though I have it defined in my bash profile and echoing it shows /Applications/freesurfer/7.3.2. I was on Freesurfer 7.2.0 originally, but I’ve now upgraded to 7.3.2 to fix this error but had no luck. I’ve also changed all the read/write permissions in the file directories but still no luck. Thanks, Daniel
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