.pre-commit-config.yaml

# See https://pre-commit.com for more information
# See https://pre-commit.com/hooks.html for more hooks
exclude: >
    (?x)^(
    docs/.*
    )$

repos:
-   repo: https://github.com/pre-commit/pre-commit-hooks
    rev: v4.3.0
    hooks:
    -   id: no-commit-to-branch
        args: ["--branch", "master", "--branch", "main"]
    -   id: trailing-whitespace
    -   id: end-of-file-fixer
    -   id: check-yaml
    -   id: check-added-large-files

-   repo: https://github.com/pycqa/isort
    rev: 5.10.1
    hooks:
    -   id: isort
        args: ["--profile", "black"]

-   repo: https://github.com/pre-commit/mirrors-mypy
    rev: v0.982
    hooks:
    -   id: mypy
        additional_dependencies: [pydantic, types-PyYAML]

-   repo: https://github.com/psf/black
    rev: 22.10.0
    hooks:
    -   id: black

-   repo: https://github.com/PyCQA/pydocstyle
    rev: 6.1.1
    hooks:
    -   id: pydocstyle
        types: [python]
        files: "tumoroscope/.*"
        args: ["--convention", "google", "--add-ignore", "D301,D105"]
        additional_dependencies: [toml]

-   repo: https://github.com/PyCQA/flake8
    rev: 5.0.4
    hooks:
    -   id: flake8

-   repo: https://github.com/asottile/pyupgrade
    rev: v3.1.0
    hooks:
    -   id: pyupgrade
        args: ["--py39-plus"]

- repo: https://github.com/nbQA-dev/nbQA
  rev: 1.5.3
  hooks:
    -   id: nbqa-check-ast
    -   id: nbqa-isort
        args: ["--profile=black"]
    -   id: nbqa-black
    -   id: nbqa-pyupgrade
        args: ["--py39-plus"]
    -   id: nbqa-flake8
    -   id: nbqa-mypy
        additional_dependencies: [mypy, pydantic]