raven-python/pyproject.toml at develop · SysBioChalmers/raven-python · GitHub

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[build-system]
requires = ["hatchling"]
build-backend = "hatchling.build"

[project]
name = "raven-python"
version = "0.1.0a1"
description = "Reconstruction, Analysis and Visualization of Metabolic Networks in Python, a port of the RAVEN Toolbox built on cobrapy"
readme = "README.md"
requires-python = ">=3.11"
license = { text = "MIT" }
authors = [
    { name = "Eduard Kerkhoven", email = "eduardk@chalmers.se" },
]
keywords = [
    "genome-scale-model",
    "metabolic-model",
    "reconstruction",
    "raven",
    "cobra",
    "systems-biology",
    "constraint-based-modeling",
    "kegg",
    "metacyc",
    "tinit",
]
classifiers = [
    "Development Status :: 3 - Alpha",
    "Intended Audience :: Science/Research",
    "License :: OSI Approved :: MIT License",
    "Operating System :: OS Independent",
    "Programming Language :: Python :: 3",
    "Programming Language :: Python :: 3.11",
    "Programming Language :: Python :: 3.12",
    "Programming Language :: Python :: 3.13",
    "Topic :: Scientific/Engineering :: Bio-Informatics",
]
dependencies = [
    "cobra>=0.29",
    "numpy>=1.21",
    "pandas>=2",
    "scipy>=1.10",
    "ruamel.yaml>=0.17",
    "requests>=2.28",
    "tqdm>=4.65",
]

[project.optional-dependencies]
dev = [
    "pytest>=7",
    "pytest-cov",
    "ruff>=0.4",
]
excel = [
    "openpyxl>=3.1",
]
plotting = [
    "matplotlib>=3.5",
]

[project.urls]
Homepage = "https://github.com/SysBioChalmers/raven-python"
Source = "https://github.com/SysBioChalmers/raven-python"
Issues = "https://github.com/SysBioChalmers/raven-python/issues"
"RAVEN MATLAB" = "https://github.com/SysBioChalmers/RAVEN"

[tool.hatch.build.targets.wheel]
packages = ["src/raven_python"]

[tool.pytest.ini_options]
testpaths = ["tests"]

[tool.ruff]
line-length = 100
target-version = "py311"

[tool.ruff.lint]
select = ["E", "F", "W", "I", "UP", "B"]
ignore = [
    "E501",  # line length handled by the formatter
]

[tool.ruff.lint.per-file-ignores]
"tests/*" = ["E402"]