pyproject.toml

[build-system]
requires = ["setuptools>=61.0.0", "setuptools-scm"]
build-backend = "setuptools.build_meta"

[project]
name = "Binette"
description = "Binette: accurate binning refinement tool to constructs high quality MAGs."
dynamic = ["version"]
authors = [
    {name = "Jean Mainguy"},
]
maintainers = [
    {name = "Jean Mainguy"},
]

readme = "README.md"
keywords = ["Bioinformatics", "Prokaryote", "Binning", "Refinement", "Metagenomics"]
classifiers=[
    "Environment :: Console",
    "Intended Audience :: Science/Research",
    "Natural Language :: English",
    "Operating System :: POSIX :: Linux",
    "Programming Language :: Python :: 3",
    "Topic :: Scientific/Engineering :: Bio-Informatics"]
requires-python = ">=3.8"
license = {file="LICENCE"}

[project.optional-dependencies]
main_deps = [
    "checkm2==1.*",
    "networkx==3.*",
    "numpy==1.19.2",
    "packaging==23.*",
    "pandas==1.4.0",
    "pyfastx==2.*",
    "pyrodigal==2.*",
    "requests==2.*",
    "tqdm==4.*",
]

doc = [
    "sphinx==6.2.1",
    "sphinx_rtd_theme==1.2.2",
    "readthedocs-sphinx-search==0.3.1",
    "sphinx-autobuild==2021.3.14",
    "myst-parser==1.0.0",
    "docutils==0.18.1", #"myst-nb",
    "nbsphinx==0.9.5",
    "nbsphinx_link==1.3.0",
    "sphinx-book-theme==1.0.1",
    "sphinxcontrib.mermaid",
    "sphinx_togglebutton==0.3.2"
     ]

dev = [
    "pytest>=7.0.0",
    "pytest-cov"
]
#
[project.urls]
Repository = "https://github.com/genotoul-bioinfo/Binette"
#Changelog = "https://github.com/me/spam/blob/master/CHANGELOG.md"
Documentation = "https://binette.readthedocs.io"
#
#
[project.scripts]
binette = "binette.main:main"

[tool.setuptools]
packages = ["binette"]


[tool.setuptools.dynamic]
version = {attr = "binette.__version__"}