Write out aslref CBF + ATT in minimal mode

[tsalo]

Closes none, but addresses a bug detected by @effigies.

In minimal mode, ASLPrep runs the CBF workflow, but doesn't currently write out the CBF derivatives. This is a bug. ASLPrep should write out aslref-space CBF derivatives no matter what, since they're the main output of interest.

Changes proposed in this pull request

• Modify init_ds_asl_native_wf in the following ways:
  • Stop writing out the aslref-space ASL brain mask. This is handled by init_asl_fit_wf.
  • Write out CBF and ATT derivatives by default. Previously they were only written out if the parameter asl_output was True. Now, that parameter only determines if the aslref ASL file is written out.
• Move init_ds_asl_native_wf to before the workflow is returned when minimal mode is enabled.
• Call init_ds_asl_native_wf if aslref outputs are requested and full mode is enabled or minimal/resampling mode is enabled. This way, if you're running in full mode and you don't want aslref outputs, you don't get them. However, if you're running in minimal or resampling mode, you get out aslref CBF and ATT outputs no matter what.

[effigies]

Does this include reports? Generally, the more reports you can generate without rerunning, the better.

[tsalo]

I currently have CBF reports and confounds as part of the "resampling" level. If I move those up to "minimal" I don't think I'll have anything that's specific to "resampling". Happy to do it, but not sure what resampling should be used for.

[effigies]

I pretty much only have "resampling" there for tedana users or other experimenters. Confounds are in full, for fmriprep.

[codecov-commenter]

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 83.18%. Comparing base (1729618) to head (72c815c).
Report is 3 commits behind head on main.

Additional details and impacted files

@@            Coverage Diff             @@
##             main     #522      +/-   ##
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- Coverage   83.24%   83.18%   -0.07%     
==========================================
  Files          38       38              
  Lines        4101     4086      -15     
==========================================
- Hits         3414     3399      -15     
  Misses        687      687              

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[tsalo]

That works for me. I'll make a note that "resampling" is the same as "minimal" (for now) in the documentation and I'll move the report generation to the minimal level.

[effigies]

I don't understand this logical and...