.pre-commit-config.yaml

default_language_version:
  node: system

repos:
  - repo: https://github.com/pre-commit/pre-commit-hooks
    rev: v5.0.0
    hooks:
      - id: check-yaml
        stages: [commit]
      - id: check-json
        stages: [commit]
      - id: check-toml
        stages: [commit]
      - id: check-merge-conflict
        stages: [commit]
      - id: check-case-conflict
        stages: [commit]
      - id: detect-private-key
        stages: [commit]
      - id: check-added-large-files
        args: ["--maxkb=150000"]
      - id: end-of-file-fixer
      - id: trailing-whitespace

  - repo: https://github.com/doublify/pre-commit-rust
    rev: v1.0
    hooks:
      - id: fmt
      - id: cargo-check

  - repo: https://github.com/charliermarsh/ruff-pre-commit
    rev: "v0.8.2"
    hooks:
      - id: ruff
        args: [--fix, --exit-non-zero-on-fix, --unsafe-fixes]
      - id: ruff-format

    # python docstring coverage checking
  - repo: local
    hooks:
      - id: interrogate
        name: interrogate
        entry: interrogate
        language: system
        types: ["python"]
        args:
          [
            --verbose,
            --fail-under=80,
            --ignore-init-module,
            --ignore-init-method,
            --ignore-module,
            --ignore-nested-functions,
            -vv,
          ]

  # shell scripts linter
  - repo: https://github.com/shellcheck-py/shellcheck-py
    rev: v0.10.0.1
    hooks:
      - id: shellcheck

  # md formatting
  - repo: https://github.com/executablebooks/mdformat
    rev: 0.7.19
    hooks:
      - id: mdformat
        args: ["--number"]
        additional_dependencies:
          - mdformat-gfm
          - mdformat-tables
          - mdformat_frontmatter
          # - mdformat-toc
          # - mdformat-black

  # jupyter notebook cell output clearing
  - repo: https://github.com/kynan/nbstripout
    rev: 0.8.1
    hooks:
      - id: nbstripout

  # jupyter notebook linting
  - repo: https://github.com/nbQA-dev/nbQA
    rev: 1.9.1
    hooks:
      - id: nbqa-black
        args: ["--line-length=99"]
      - id: nbqa-isort
        args: ["--profile=black"]
      - id: nbqa-flake8
        args:
          [
            "--extend-ignore=E203,E402,E501,F401,F841",
            "--exclude=logs/*,data/*",
          ]