.pre-commit-config.yaml

repos:
- repo: https://github.com/pre-commit/pre-commit-hooks
  rev: v4.2.0
  hooks:
  - id: trailing-whitespace
  - id: end-of-file-fixer
  - id: mixed-line-ending
  - id: check-yaml
  - id: check-merge-conflict
  - id: check-added-large-files
    args: ['--maxkb=2000']
- repo: https://github.com/psf/black
  rev: 22.3.0
  hooks:
  - id: black
  - id: black-jupyter
- repo: https://github.com/aflc/pre-commit-jupyter
  rev: v1.2.1
  hooks:
  - id: jupyter-notebook-cleanup
- repo: https://github.com/snakemake/snakefmt
  rev: v0.6.0
  hooks:
  - id: snakefmt
- repo: https://github.com/jonasbb/pre-commit-latex-hooks
  rev: v1.4.0
  hooks:
    - id: american-eg-ie
    - id: cleveref-capitalization
    - id: consistent-spelling
      args:
          [
            "--emph=et al.",
            "--emph=a priori",
            "--emph=a posteriori",
            '--regex=naive=\bna(i|\\"i)ve',
          ]
    # - id: csquotes
    # - id: ensure-labels-for-sections
    - id: no-space-in-cite
    - id: tilde-cite
    # - id: unique-labels
    - id: cleveref-instead-of-autoref
# - repo: https://github.com/fsfe/reuse-tool
#   rev: latest
#   hooks:
#   - id: reuse