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nipy / mindboggle

Automated anatomical brain label/shape analysis software (+ website)
http://mindboggle.info
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Error re: DATA argument #179

Closed g-a-t closed 5 years ago

g-a-t commented 5 years ago

Have successfully run Freesurfer and ANTs via Mindboggle in the Docker container on Mac OS 10.14.5 (Mojave). Outputs look good.

However, I get an issue when trying to run Mindboggle on this preprocessed data. Same error occurs when trying any of the example commands listed at https://github.com/nipy/mindboggle. I believe my environment variables are correct (i.e. they point to my Freesurfer and ANTs outputs accordingly).

Error is as follows:

Screenshot 2019-06-10 14 20 40

Please advise-- thanks!

binarybottle commented 5 years ago

You don't have the correct path to $FREESURFER_SUBJECT --

Example: /home/jovyan/work/mindboggle_input_example/freesurfer/subjects/arno

Note: I am busy preparing a new docker container tonight...