Smriprep

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A bug-fix release that reworks selection within the
FreeSurfer to native segmentation resampling workflow.

* FIX: Select function in segmentation resampling workflow (450)

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Start of the 0.16.x minor series.

This release decouples much of the hardcoded T1w behavior in favor of T1w/T2w options,
to allow easier integration with tools less reliant on a single anatomical scan.

* ENH: Use genericised "anat" input/output for TemplateDimensions (443)
* ENH: Remove much of the hardcoded `T1w` fields in favor of `anat` (433)
* RF: Load package data with acres (448)
* RF: `space-fsaverage` to `sphere_reg` output files (446)
* MNT: Unpin libitk 5.3 (ANTs 2.5.3 is built with 5.4) (445)
* MNT: Clean up doc builds, environment, style checks (444)

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New feature release in the 0.15.x series.

This release adds the workflow configuration option and CLI option
to reuse existing FreeSurfer outputs without attempting to resume.
This should allow for using longitudinal or non-standard pipelines
(for example, FastSurfer) without additional tooling for each variant.

* FIX: Patch version for smriprep-docker (424)
* FIX: Require recent templateflow, select correct aparc dseg.tsv (420)
* ENH: Add --fs-no-resume option to reuse existing FreeSurfer outputs without resuming (393)
* MNT: set copyright owner in LICENSE file (426)
* MNT: Apply Repo-Review suggestions (422)
* CI: Small cleanups to GHA (423)

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New feature release in the 0.14.x series.

This release restores correct handling of cohort identifiers in templates.
A feature release is warranted due to changes in the workflow structure.

* FIX: Fetch templates during workflow construction (418)
* FIX: Re-add cohort identifier to template name (416)
* FIX: Repair FreeSurfer Dependency in Dockerfile (tcsh) (404)
* FIX: Invert result of skull-strip check in auto mode (402)
* STY: Adopt ruff for linting and formatting (397)
* CHORE: Update ruff, ignore certain rules (419)

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Bug fix release in the 0.13.x series.

This release fixes a check for skull-stripping in auto mode, and adds
missing fsLR atlases to the Python package resources.
The Docker image has also been updated to ensure FreeSurfer can be run
from the sMRIPrep container.

With thanks to Patrick Sadil for reports and fixes.

* ENH: Add 59k atlases (405)
* FIX: Repair FreeSurfer dependency in Dockerfile (tcsh) (404)
* FIX: Invert result of skull-strip check in auto mode (402)

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Bug fix release in the 0.13.x series.

This release fixes a bug with a workflow connection that was not properly
named, and which would cause an error when T2-weighted images were provided.

* FIX: T1w_preproc -> t1w_preproc (399)