.pre-commit-config.yaml

---
exclude: |
    (?x)^(
    demos/renaming/spm_2_bids_filenames.ipynb
    | demos/MoAE/moae_01_bids_app.ipynb
    )$

ci:
    skip: [hadolint-docker]


repos:
-   repo: local

    hooks:
    -   id: mh_style
        name: mh_style
        entry: mh_style
        args: [--process-slx, --fix]
        files: ^(.*\.(m|slx))$
        language: python
        additional_dependencies: [miss_hit_core]

    -   id: mh_metric
        name: mh_metric
        entry: mh_metric
        args: [--ci]
        files: ^(.*\.(m|slx))$
        language: python
        additional_dependencies: [miss_hit_core]

    -   id: mh_lint
        name: mh_lint
        entry: mh_lint
        files: ^(.*\.(m|slx))$
        language: python
        additional_dependencies: [miss_hit]

-   repo: https://github.com/pre-commit/pre-commit-hooks
    rev: v5.0.0
    hooks:
    -   id: trailing-whitespace
    -   id: end-of-file-fixer
    -   id: check-yaml
    -   id: check-json
    -   id: check-added-large-files
    -   id: pretty-format-json
        args: [--autofix, --no-sort-keys]

-   repo: https://github.com/macisamuele/language-formatters-pre-commit-hooks
    rev: v2.14.0
    hooks:
    -   id: pretty-format-toml
        args: [--autofix, --indent, '4']

-   repo: https://github.com/jumanjihouse/pre-commit-hook-yamlfmt
    rev: 0.2.3
    hooks:
    -   id: yamlfmt
        args: [--mapping, '4', --sequence, '4', --offset, '0']

-   repo: https://github.com/pre-commit/pygrep-hooks
    rev: v1.10.0
    hooks:
    -   id: rst-backticks
    -   id: rst-inline-touching-normal

-   repo: https://github.com/pycqa/isort
    rev: 5.13.2
    hooks:
    -   id: isort
        args: [--profile, black]

-   repo: https://github.com/psf/black
    rev: 24.10.0
    hooks:
    -   id: black
        args: [--config=pyproject.toml]

-   repo: https://github.com/asottile/pyupgrade
    rev: v3.19.0
    hooks:
    -   id: pyupgrade
        args: [--py38-plus]

-   repo: https://github.com/pre-commit/mirrors-mypy
    rev: v1.13.0
    hooks:
    -   id: mypy
        files: bidspm
        args: [--config-file, pyproject.toml]

-   repo: https://github.com/hadolint/hadolint
    rev: v2.13.1-beta
    hooks:
    -   id: hadolint-docker
        name: Lint Dockerfiles
        description: Runs hadolint Docker image to lint Dockerfiles
        language: docker_image
        types: [dockerfile]
        entry: ghcr.io/hadolint/hadolint hadolint

-   repo: https://github.com/codespell-project/codespell
    rev: v2.3.0
    hooks:
    -   id: codespell
        args: [--toml, pyproject.toml]
        additional_dependencies: [tomli]

# Check that Python code complies with PEP8 guidelines
# flake8 uses pydocstyle to check docstrings: https://flake8.pycqa.org/en/latest/
# flake8-docstrings: https://pypi.org/project/flake8-docstrings/
# flake8-use-fstring forces to use fstrings: https://pypi.org/project/flake8-use-fstring/
# flake8-functions checks functions quality: https://pypi.org/project/flake8-functions/
# flake8-bugbear detects some common bugs: https://github.com/PyCQA/flake8-bugbear
-   repo: https://github.com/pyCQA/flake8
    rev: 7.1.1
    hooks:
    -   id: flake8
        args: [--config, .flake8, --verbose, src, tools, docs, demos, tests]
        additional_dependencies: [flake8-docstrings, flake8-use-fstring, flake8-bugbear]