Fmriprep: Poor INU correction

[effigies]

Tracking some subjects that appear to have poor INU correction in 20.2.0rc0. Should rerun with 20.2.0rc2 to see if the latest changes make any improvements. I would not consider this blocking, however.

The following list will be updated as cases are encountered.

• [x] ds001 / sub-13
• [x] ds001 / sub-16
• [x] ds231 / sub-04
• [x] ds1021 / sub-A00008326

@jbwexler could you rerun these?

What version of fMRIPrep are you using?

20.2.0rc0

What kind of installation are you using? Containers (Singularity, Docker), or "bare-metal"?

What is the exact command-line you used?

<place your command line here>

Have you checked that your inputs are BIDS valid?

Did fMRIPrep generate the visual report for this particular subject? If yes, could you share it?

Can you find some traces of the error reported in the visual report (at the bottom) or in crashfiles?

<please copy&paste all the information you can gather about errors>

Are you reusing previously computed results (e.g., FreeSurfer, Anatomical derivatives, work directory of previous run)?

fMRIPrep log

If you have access to the output logged by fMRIPrep, please make sure to attach it as a text file to this issue.

[jbwexler]

No problem, they're running now.

[oesteban]

DS001 is already on sherlock after 20.2.0rc2 - /oak/stanford/groups/russpold/data/openneuro.org/derivatives/ds000001/fmriprep-20.2.0rc2/fmriprep/

Both look acceptable to me:

sub-13:

sub-16:

The first one (sub-13) is pretty interesting from a QC perspective because of the several artifacts that seem to be happening at the same time. Surprising that its surface reconstruction is usable.

[effigies]

Agreed. Those look better.

[effigies]

ds231 much improved.

[effigies]

All noted subjects improved by 20.2.0rc2.