PyMutSpec/pyproject.toml at master · mitoclub/PyMutSpec · GitHub

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[build-system]
requires = ["setuptools", "wheel"]
build-backend = "setuptools.build_meta"

[project]
name = "PyMutSpec"
dynamic = ["version"]
description = "Mutational spectra analysis package"
authors = [
  { name="kpotoh", email="axepon@mail.ru" },
]
license = {file = "LICENSE"}
readme = {file = "README.md", content-type = "text/markdown"}
keywords = ["Bioinformatics", "Genetics", "Mutational spectra"]
classifiers = [
    "Operating System :: OS Independent",
    "Development Status :: 3 - Alpha",
    "Programming Language :: Python :: 3",
    "Programming Language :: Python :: 3.8",
    "Programming Language :: Python :: 3.9",
    "Programming Language :: Python :: 3.10",
    "Programming Language :: Python :: 3.11",
    "Programming Language :: Python :: 3.12",
    "Programming Language :: Python :: 3.13",
    "Programming Language :: Python :: 3.14",
    "Topic :: Scientific/Engineering",
    "Topic :: Scientific/Engineering :: Bio-Informatics",
    "Topic :: Software Development :: Libraries :: Python Modules",
    "License :: OSI Approved :: MIT License",
]
requires-python = ">=3.8"
dependencies = [
    "numpy",
    "pandas",
    "seaborn",
    "biopython>=1.75",
    "PyYAML",
    "click",
]

[project.optional-dependencies]
dev = ["pytest", "pytest-cov", "flake8", "ete3>=3", "legacy-cgi", "tox", "ruff", "build", "twine"]

[project.urls]
Homepage = "https://github.com/mitoclub/PyMutSpec"
Changelog = "https://github.com/mitoclub/PyMutSpec/blob/master/CHANGELOG.md"
"Bug Tracker" = "https://github.com/mitoclub/PyMutSpec/issues"

[tool.setuptools.packages.find]
where = ["src"]

[tool.setuptools]
script-files = ["scripts/multifasta_coding.py", "scripts/alignment2iqtree_states.py",
                "scripts/select_records.py", "scripts/iqtree_states_add_part.py",
                "scripts/collect_mutations.py", "scripts/calculate_mutspec.py"]


[tool.setuptools.dynamic]
version = {attr = "pymutspec.__version__"}  # any module attribute compatible with ast.literal_eval

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