-
Notifications
You must be signed in to change notification settings - Fork 3
/
pyproject.toml
81 lines (74 loc) · 1.78 KB
/
pyproject.toml
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
[project]
name = "clep"
version = "0.0.5-dev"
description = "A Hybrid Data and Knowledge Driven Framework for Generating Patient Representations"
readme = "README.md"
requires-python = ">=3.7"
keywords = [
"Bioinformatics",
"Machine Learning",
"Prediction Models",
"Embeddings",
]
license = { file = "LICENSE" }
authors = [
{ name = "Vinay Bharadhwaj", email = "[email protected]" },
]
classifiers = [
"Development Status :: 4 - Beta",
"Environment :: Console",
"Intended Audience :: Developers",
"Intended Audience :: Science/Research",
"License :: OSI Approved :: Apache Software License",
"Operating System :: OS Independent",
"Programming Language :: Python",
"Programming Language :: Python :: 3.7",
"Programming Language :: Python :: 3.12",
"Programming Language :: Python :: 3 :: Only",
"Topic :: Scientific/Engineering :: Bio-Informatics",
]
dependencies = [
"click",
"pandas",
"rpy2",
"statsmodels",
"scikit-learn",
"seaborn",
"gseapy",
"cffi",
"pycairo",
"networkx",
"xgboost",
"tqdm",
"scikit-optimize",
"pykeen",
"pandera",
"optuna",
"joblib",
"sqlalchemy",
"mysqlclient",
]
[tool.setuptools.packages.find]
where = ["src"]
[project.optional-dependencies]
docs = [
"sphinx",
"sphinx-rtd-theme",
"sphinx-click",
"sphinx-autodoc-typehints",
]
dev = ["black", "mypy", "bump-my-version", "pandas-stubs"]
[project.scripts]
"clep" = "clep.cli:main"
[tool.doc8]
max-line-length = 120
[tool.coverage.run]
branch = true
source = "clep"
[tool.coverage.report]
exclude_lines = ["def __repr__", "def __str__"]
[tool.mypy]
ignore_missing_imports = true
strict = true
plugins = ["numpy.typing.mypy_plugin", "pandera.mypy"]
exclude = "docs"