pyproject.toml

[project]
authors = [
    { name = "Carlos Loucera", email = "carlos.loucera@juntadeandalucia.es" },
    { name = "Marina Esteban-Medina", email = "marina.esteban@juntadeandalucia.es" },
    { name = "Maria Pena-Chilet", email = "maria.pena.chilet.ext@juntadeandalucia.es.com" },
    { name = "Víctor Manuel de la Oliva Roque", email = "victorm.oliva@juntadeandalucia.es" },
    { name = "Sara Herráiz-Gil ", email = "sherraiz@ing.uc3m.es" },
]
requires-python = ">=3.8,<3.11"
dependencies = [
    "scikit-learn>=1.3.0",
    "numpy>=1.24.4,<2.0",
    "scipy>=1.10.1",
    "pandas>=2.0.3",
    "seaborn>=0.12.2",
    "shap==0.42.0",
    "matplotlib>=3.7.2",
    "python-dotenv>=1.0.0",
    "pyarrow>=12.0.1",
    "statsmodels>=0.14.0",
    "pystow>=0.5.0",
]
name = "drexml"
version = "1.1.3"
description = "(DRExM³L) Drug REpurposing using and eXplainable Machine Learning and Mechanistic Models of signal transduction\""
readme = "README.md"

[project.license]
text = "MIT"

[project.group.dev.dependencies.coverage]
extras = [
    "toml",
]
version = "^7.2.7"

[project.scripts]
drexml = "drexml.cli.cli:main"

[tool.pdm.dev-dependencies]
dev = [
    "black<23.0.0,>=22.3.0",
    "isort<6.0.0,>=5.10.1",
    "pylint<3.0.0,>=2.14.0",
    "pytest<8.0.0,>=7.1.2",
    "Sphinx<6.0.0,>=5.0.1",
    "sphinx-click<5.0.0,>=4.1.0",
    "sphinx-rtd-theme<2.0.0,>=1.0.0",
    "flake8<5.0.0,>=4.0.1",
    "flake8-black<1.0.0,>=0.3.3",
    "coverage>=7.2.7",
]

[tool.pytest.ini_options]
minversion = "6.0"
addopts = [
    "--ff",
    "-ra",
    "-v",
    "--import-mode=importlib",
]
python_functions = [
    "test_*",
]
testpaths = [
    "tests",
]

[tool.isort]
profile = "black"

[tool.black]
line-length = 88

[tool.coverage.run]
omit = [
    ".*",
    "*/site-packages/*",
    "./tests/*",
]

[tool.coverage.report]
fail_under = 95

[build-system]
requires = [
    "pdm-backend",
]
build-backend = "pdm.backend"