🚚 Update outputs for v1.8.5

[shnizzedy]

• [x] Rename
  • [x] #1819 & #1833
  • [x] #1641 using templateflow names for atlases: #1823
  • [x] remove hyphens from BIDS entity values: #1825
  • [x] #1835
  • [x] #1831 (e.g., desc-preproc-1, desc-preproc-2 becomes desc-preprocReg36Parameter, desc-preprocRegACompCor)
  • [x] _motion outputs closer to compliance with BEP012 via #1832
  • [x] desc-binarizedSmZstd_degreeCentrality.nii.gz could use desc-smZstd_dcb if you want, based on the dcb suffix in BEP012. BEP012 also has a lfcdb for binarized local functional connectivity density and lfcdw for the weighted version (in #1849)
  • [x] update res-derivative to give the actual resolution (in #1849)
  • [x] timeseries and correlations should be post-regression (in #1849)
• [ ] Confirm
  • [ ] desc-preproc_T1w.nii.gz is different from other T1ws if included
  • [ ] which segmentation masks are applied and include those in the output directory for rbc-options
• [x] Add to rbc-options outputs (#1820)
  • [x] whole head desc-preproc_T1w.nii.gz (in #1820)
  • [x] space-{template}_desc-preproc_T1w.nii.gz (in #1820)
  • [x] space-{template}_desc-brain_mask.nii.gz (in #1820)

[shnizzedy]

Additional comments / updates not slated for 1.8.5:

• [ ] Choice of h5 or nii.gz for output transforms
• [ ] Choice of tsv or 1D for output timeseries
• [ ] correlations → conmat & nodenames per BEP017

  Correlations aren't in the spec yet, but there's a BEP with some good conventions: https://docs.google.com/document/d/1ugBdUF6dhElXdj3u9vw0iWjE6f_Bibsro3ah7sRV0GA/edit. Basically, use the conmat suffix, there's a measure entity for the connectivity measure to keep it separate from "desc", and you need a "nodenames" sidecar file to indicate the atlas node names, because the TSV won't have a header or index.

• [ ] _motion outputs fully in compliance with BEP012 via #1576 / #1624