Taylor Salo

This might be a dumb question, but isn't the Jacobian weighting meant to deal with signal pileup in the _BOLD_ image? Would the field map type affect whether or not...

None of the integration tests typically raise this warning, so I don't know if it's working based on that.

@handwerkerd I think it's working now. I tested using the dataset you shared and there are now no plotting-related warnings.

From https://github.com/ME-ICA/tedana/pull/1131#issuecomment-2489423796: >I ran tedana on some infant data where the kappa and rho elbow criteria were reported to be causing problems. In my hands, it was possible to get...

What about a new parameter like `--consistency-levels` that we could set to `subject`, `session`, and/or `run`, with a default value of `subject`?

Do the coregistration and normalization figures look good to you? I've noticed issues with the version of nitransforms bundled in fMRIPrep 24.1.0rc0 in fMRIPost-AROMA (see https://github.com/nipreps/fmripost-aroma/pull/58#issuecomment-2325254977), so that might be...

`acquisition-VARIANTEchoTime2FlipAngle75` --> `acquisition-VARIANT+EchoTime2+FlipAngle75`

My default is not to expand tedana's flexibility- it is already a very complicated tool with many knobs people can tune. I propose writing instructions for how to create ROI...

We remove the confounds tsv when the OutputGenerator is initialized because it's a file that's appended to, instead of written out. We could instead build a complete list of possible...

Absolutely! That seems like a much better approach.