.pre-commit-config.yaml

exclude: ".*/data/.*"
repos:
  - repo: https://github.com/pre-commit/pre-commit-hooks
    rev: v4.6.0
    hooks:
      - id: trailing-whitespace
      - id: end-of-file-fixer
      - id: check-yaml
      - id: check-json
      - id: check-toml
      - id: check-added-large-files
      - id: check-case-conflict
      - id: check-merge-conflict
      - id: check-vcs-permalinks
  - repo: https://github.com/astral-sh/ruff-pre-commit
    rev: v0.6.4
    hooks:
      - id: ruff
        args: [ --fix ]
        exclude: = ["doc", "tools"]
      - id: ruff-format
        exclude: = ["doc", "tools"]
      - id: ruff
        args: [ --select, ISC001, --fix ]
        exclude: = ["doc", "tools"]
  - repo: https://github.com/pre-commit/mirrors-mypy
    rev: v1.11.2
    hooks:
      - id: mypy
        # Sync with project.optional-dependencies.typing
        additional_dependencies:
          - pytest
          - types-setuptools
          - types-Pillow
          - pydicom
          - numpy
          - pyzstd
          - importlib_resources
        args: ["nibabel"]
        pass_filenames: false
  - repo: https://github.com/codespell-project/codespell
    rev: v2.3.0
    hooks:
      - id: codespell
        additional_dependencies:
          - tomli