InstaNovo/.pre-commit-config.yaml at main · DigBioLab/InstaNovo · GitHub

1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
default_stages: [commit]

repos:
  - repo: https://github.com/asottile/reorder_python_imports
    rev: v3.12.0
    hooks:
      - id: reorder-python-imports
        args:
          - --py38-plus
          - --add-import=from __future__ import annotations

  - repo: https://github.com/psf/black
    rev: 23.9.1
    hooks:
      - id: black
        args:
          - --line-length=100
          - --target-version=py38

  - repo: https://github.com/PyCQA/flake8
    rev: 6.1.0
    hooks:
      - id: flake8
        args:
          - --max-line-length=100
          - --max-cognitive-complexity=15
          - --ignore=E203,E266,E501,W503
        additional_dependencies:
          - pep8-naming==0.13.3
          - flake8-absolute-import==1.0.0.1
          - flake8-bugbear==22.12.6
          - flake8-builtins==2.0.1
          - flake8-class-attributes-order==0.1.3
          - flake8-cognitive-complexity==0.1.0
          - flake8-comprehensions==3.10.1
          - flake8-pytest-style==1.6.0

  - repo: https://github.com/pre-commit/pre-commit-hooks
    rev: v4.5.0
    hooks:
      - id: debug-statements # Check for debugger imports
      - id: requirements-txt-fixer # Order requirements alphabetically
      - id: check-ast # Simply check whether the files parse as valid python
      - id: check-case-conflict # Check for files that would conflict in case-insensitive filesystems
      - id: check-builtin-literals # Require literal syntax when initializing empty or zero Python builtin types
      - id: check-docstring-first # Check a common error of defining a docstring after code
      - id: check-merge-conflict # Check for files that contain merge conflict strings
      - id: check-yaml # Check yaml files
        args: ["--unsafe"]
      - id: end-of-file-fixer # Ensure that a file is either empty, or ends with one newline
      - id: mixed-line-ending # Replace or checks mixed line ending
      - id: trailing-whitespace # This hook trims trailing whitespace

  - repo: https://github.com/pre-commit/mirrors-mypy
    rev: v1.6.0
    hooks:
      - id: mypy
        additional_dependencies: ["types-requests"]

  - repo: https://github.com/compilerla/conventional-pre-commit
    rev: v2.4.0
    hooks:
      - id: conventional-pre-commit
        stages:
          - commit-msg
        args: ["ci", "build", "docs", "feat", "fix", "perf", "refactor", "style", "test", "exp"]

  - repo: https://github.com/pre-commit/mirrors-prettier
    rev: v3.0.0-alpha.4
    hooks:
      - id: prettier
        args:
          - --print-width=100
          - --prose-wrap=always
          - --tab-width=2

  - repo: https://github.com/pre-commit/mirrors-prettier
    rev: v3.0.3
    hooks:
      - id: prettier
        args:
          - --print-width=100
          - --prose-wrap=always
          - --tab-width=2

  - repo: https://github.com/asottile/pyupgrade
    rev: v3.15.0
    hooks:
      - id: pyupgrade
        args:
          - --py38-plus

  - repo: https://github.com/pycqa/pydocstyle
    rev: 6.3.0
    hooks:
      - id: pydocstyle
        additional_dependencies: ["toml"]
        args:
          - --convention=google
          - --add-ignore=D100,D104,D105,D107,D417

  - repo: https://github.com/alessandrojcm/commitlint-pre-commit-hook
    rev: v9.5.0
    hooks:
      - id: commitlint
        stages: [commit-msg]
        additional_dependencies: ["@commitlint/config-conventional"]

  - repo: https://github.com/codespell-project/codespell
    rev: v2.2.6
    hooks:
      - id: codespell
        name: codespell
        description: Checks for common misspellings in text files.
        entry: codespell --skip="*.js,*.html,*.css, *.svg" --ignore-words=.codespell-ignore.txt
        language: python
        types: [text]

  - repo: https://github.com/kynan/nbstripout
    rev: 0.6.1
    hooks:
      - id: nbstripout