Closed jdkent closed 5 years ago
@jdkent Good point. I think freesurfer was a prerequisite because at some point your MBA skull stripping algorithm (which needs fs) was wrapped into these scripts. But based on that logic, MBWSS would have been a prereq as well...hmm :anguished:
A quick skim through the scripts suggests freesufer isn't needed. Will try a test run without freesufer loaded to verify.
Summary
The containers are big and freesurfer is the largest contributor to that. What freesurfer commands do we run and how much from freesurfer do we need?
Actual behavior
Containers take a long time to build and move
Expected behavior
Containers should be "light-ish" weight when possible
How to replicate the behavior
either build a container locally or pull from dockerhub.
Script/Workflow details
Please put URL to code or code here (if not too long).