Release notes

0.2.2_7.3.2 [2026-08-19]

Enhancements:

Added freesurfer_license_file as a named input in manifest.json for explicit FreeSurfer license file handling.
Expanded gear classification metadata in manifest.json with species, organ, therapeutic area, modality, and function fields.
Updated manifest.json gear description to provide a detailed summary of outputs and project-level behavior.

Fixes:

Fixed subprocess calls in main.py to use check=True, ensuring errors from mri_coreg and fsxvfb freeview are surfaced rather than silently ignored.
Replaced type(...) == comparisons with isinstance() in hierarchy.py for correct timestamp type checks.

Maintenance:

Migrated from poetry to uv for dependency management.
Upgraded base image from python 3.9 to python:3.12-bullseye.
Migrated build system from poetry.core.masonry.api to hatchling.
Replaced black and isort linting with ruff_format and ruff in pre-commit hooks.
Pinned Debian apt packages to a fixed snapshot.debian.org date for reproducible builds.
Updated PYTEST_COV_FAIL_UNDER from 0 to 15 in CI configuration.
Removed stale Jupyter notebook checkpoint test files from tests/.
Replaced placeholder tests in test_main.py and test_parser.py with real unit tests; added new test_utils.py with coverage for utils module helpers.
Updated manifest.json source and URL to the current GitLab repository path under scientific-solutions.

Documentation:

Rewrote CONTRIBUTING.md to document uv-based workflow, updated dependency management instructions, and replaced manual release process with auto-generated release notes guidance.
Updated README.md with corrected gear level checkboxes, improved use case description for project-level operation, and minor formatting fixes.

Enhancements:

Maintenance:

Documentation:

Documentation:

Notes: Categories used in release notes should match one of the following: