chore: Split Dockerfile into base and pixi layers #3521
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Codecov Report✅ All modified and coverable lines are covered by tests. Additional details and impacted files@@ Coverage Diff @@
## master #3521 +/- ##
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+ Coverage 73.64% 73.68% +0.03%
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Files 60 60
Lines 4759 4758 -1
Branches 616 616
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+ Hits 3505 3506 +1
+ Misses 1111 1110 -1
+ Partials 143 142 -1 ☔ View full report in Codecov by Sentry. 🚀 New features to boost your workflow:
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This drops CircleCI builds down to 10m (usually 30m+). GHA is pretty much unchanged (3m usually, 6m on master because of the push). It also will do a better job of ensuring that successive releases reuse the same base layers. |
mgxd
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Sep 16, 2025
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25.2.0 (October 01, 2025) New feature release in the 25.2.x series. This release is an *fMRIPrep Long-Term Support (LTS)* release. The planned support window is 4 years, until October 2029. This release is an incremental improvement over 25.1.x, but includes some fixes and improvements that do not fit within our `bug-fix policy <https://www.nipreps.org/devs/releases/#bug-fix-releases>`__. Importantly, the change in interpolation in 25.1.0 introduced artifacts for some datasets. This release changes the default interpolation mode to ``grid-constant``, which resolves those problems while not reintroducing the issue the previous release sought to fix. This release also (finally) introduces per-session processing. The ``--session-label`` flag selects the sessions to process, and the ``--subject-anatomical-reference`` flag indicates whether and how to combine across sessions. Existing filters passed via ``--bids-filter-file`` may need to be updated or removed in favor of using these flags to achieve the desired behavior. We would like to thank the AMP-SCZ and ENIGMA consortia for testing out and providing feedback on this release. * FIX: Clean up output report language (#3529) * FIX: Default to grid-constant interpolation mode (#3516) * FIX: Adapt to transposed ndcoords in nitransforms (#3517) * FIX: Write out Freesurfer-derived outputs (#3512) * FIX: Add kwargs to _warnings.py (#3483) * ENH: Resample BOLD data to any surface template space using the Connectome Workbench (#3461) * ENH: Add boldref / sbref to source metadata (#3532) * ENH: Add dedicated session filtering, alternative anatomical template options (#3495) * ENH: Write out goodvoxels mask (#3513) * ENH: Add registration metadata to boldref-to-anat transforms (#3500) * ENH: Write out cortex mask GIFTIs (#3491) * ENH: Update transforms.py according to new transform chain of nitransforms (#3494) * RF/DOC: Improve and document command-line parser defaults (#3487) * DOC: Explain better SDC and B0FieldSource requirement (#2768) * DOC: Document `freesurfer` parameter in BOLD confound workflow init (#3504) * DOC: Add myself to contributor list (#3506) * DOC: Fix non-standard Input/Output docstring section management (#3505) * MNT: Split Dockerfile into base and pixi layers (#3521) * MNT: Replace conda with pixi and lock (#3503) * MNT: Update license metadata using SPDX expression (#3486) * MNT: no need to re-run `ruff check` after `ruff format` (#3480) * MNT: Update pre-commit ruff legacy alias (#3479)
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FreeSurfer downloads are extremely finicky, and I feel bad about hitting their server as much as we do. This is something we experimented on in PETPrep, to put the non-Pixi (conda, in PETPrep) dependencies in one image that gets pushed to ghcr.io, and then building on top of that.