pyproject.toml

[build-system]
requires = ["setuptools>=42", "wheel"]
build-backend = "setuptools.build_meta"

[project]
name = "deepnog"
version = "1.2.3"
description = "Deep learning tool for protein orthologous group assignment"
readme = "README.md"
authors = [
    { name = "Roman Feldbauer", email = "sci@feldbauer.org" }
]
keywords = [
    "deep-learning", "neural-networks",
    "bioinformatics", "computational-biology",
    "protein-families", "orthologous-groups", "orthology", "eggnog"
]
classifiers = [
    "Development Status :: 4 - Beta",
    "Environment :: Console",
    "Intended Audience :: Science/Research",
    "License :: OSI Approved :: BSD License",
    "Operating System :: POSIX :: Linux",
    "Operating System :: MacOS :: MacOS X",
    "Operating System :: Microsoft :: Windows",
    "Operating System :: OS Independent",
    "Programming Language :: Python :: 3",
    "Programming Language :: Python :: 3.7",
    "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",
    "Topic :: Scientific/Engineering :: Artificial Intelligence"
]
requires-python = ">=3.7"
dependencies = [
    "numpy",
    "pandas",
    "scikit-learn",
    "torch>=1.2",
    "Biopython",
    "PyYAML",
    "tqdm",
    "tensorboard",
]

[project.urls]
homepage = "https://github.com/univieCUBE/deepnog"
documentation = "https://deepnog.readthedocs.io/en/latest/?badge=latest"
source = "https://github.com/univieCUBE/deepnog"
tracker = "https://github.com/univieCUBE/deepnog/issues"

[project.optional-dependencies]
test = ["pytest"]

[tool.setuptools]
packages = [
    "deepnog",
    "deepnog.client",
    "deepnog.config",
    "deepnog.data",
    "deepnog.learning",
    "deepnog.models",
    "deepnog.utils",
    "deepnog.tests",
]

[tool.setuptools.package-data]
"deepnog" = ["utils/certifi", "config/*.yml"]
"tests" = ["data/*.faa", "parameters/*.pth"]

[project.scripts]
deepnog = "deepnog.client:main"