0.10.0

This backwards-incompatible release brings XCP-D further in line with the fMRIPost workflows in the NiPreps ecosystem.
We have added the ability to provide custom confound sets defined as YAML config files,
ingress derivatives from fMRIPost BIDS Apps (for example, fMRIPost-AROMA),
and provide external atlases organized as BIDS-Atlas datasets.

Please note that the BIDS-Atlas extension proposal has not been merged into BIDS yet,
so the expected organization of these external atlas datasets may change over time.

What's Changed

🛠 Breaking Changes

• Replace restricted confound sets with config files by @tsalo in #1255
• Rename --derivatives parameter to --datasets by @tsalo in #1276
• Accept external atlases by searching BIDS-Atlas datasets by @tsalo in #1265
• Move hemi entity before space by @tsalo in #1287

🎉 Exciting New Features

• Remove Freesurfer node from surface normalization workflow by @tsalo in #1273
• Track Sources with BIDSURI interface by @tsalo in #1283
• Add nichart mode by @tsalo in #1320

🐛 Bug Fixes

• Patch task_id into bids_filters by @tsalo in #1271
• Fix NIfTI-surface connection by @tsalo in #1284
• Update build image version by @tsalo in #1293
• Fix bug with surfaces and external atlases by @tsalo in #1304
• Apply notch filter appropriate number of times based on --motion-filter-order by @tsalo in #1300
• Fix ingression of standard-space mesh files by @tsalo in #1309
• Fix init_qc_report_wf connections when linc-qc and abcc-qc are disabled by @tsalo in #1314

Other Changes

• Don't rerun alff if num threads changes by @mattcieslak in #1263
• Remove xcp_d_dir and clean datasinks by @tsalo in #1262
• Add dataset links to config object by @tsalo in #1266
• Document minimal required inputs by @tsalo in #1270
• Correct documentation regarding Freesurfer by @tsalo in #1277
• Improve custom confound documentation by @tsalo in #1280
• Improve documentation of new features by @tsalo in #1281
• Use ruff for linting by @tsalo in #1312
• Fix links to documentation by @tsalo in #1323

Full Changelog: 0.9.1...0.10.0