.pre-commit-config.yaml

ci:
  autofix_commit_msg: "[pre-commit] Fixes from hooks  "
  autofix_prs: true
  autoupdate_branch: "develop"
  autoupdate_commit_msg: "pre-commit hooks CI autoupdate"
  autoupdate_schedule: quarterly
  skip: []
  submodules: false

repos:
  - repo: https://github.com/pre-commit/pre-commit-hooks
    rev: v4.6.0
    hooks:
      - id: trailing-whitespace
        types: [python]
      - id: end-of-file-fixer
        types: [python]
      - id: check-merge-conflict
        types: [python]
  - repo: https://github.com/pycqa/isort
    rev: 5.13.2
    hooks:
      - id: isort
        args: [--profile, "black"]
        exclude: ^src/npr/rules/
  - repo: https://github.com/snakemake/snakefmt
    rev: v0.10.2
    hooks:
      - id: snakefmt
        files: ^src/npr/rules/
  - repo: https://github.com/psf/black-pre-commit-mirror
    rev: 24.4.2
    hooks:
      - id: black
        language_version: python3
        entry: black --target-version=py311 # 3.11
        exclude: ^src/npr/rules/
  - repo: https://github.com/asottile/pyupgrade
    rev: v3.16.0
    hooks:
      - id: pyupgrade
        args: [--py311-plus] # 3.11