I have been using the BIDS app for MRtrix and it’s been very good. I recently updated it from the latest release that incorporates eddyqc.
It seems like even though I use the preprocessed flag, it still tries to access files that would be generated from eddyqc and then the script fails because they don’t exist (because the data is preprocessed).
The flag is thrown at line 750:
run.function(shutil.copytree, 'eddyqc', os.path.join(output_dir, 'dwi'))
Would be great if this could get resolved, or if it’s something bad on my end I would love to learn how to fix this.
Thanks so much.