pyproject.toml

[build-system]
requires = [
    "setuptools>=42",
    "setuptools_scm",
    "wheel",
    "numpy>=2"
]
build-backend = "setuptools.build_meta"

[tool.setuptools_scm]
write_to = "tsinfer/_version.py"

[project]
name = "tsinfer"
dynamic = ["version"]
authors = [
    {name = "Tskit Developers", email = "admin@tskit.dev"},
]
description = "Infer tree sequences from genetic variation data."
readme = "README.md"
requires-python = ">=3.9"
license = {text = "GNU GPLv3+"}
classifiers = [
    "Programming Language :: C",
    "Programming Language :: Python",
    "Programming Language :: Python :: 3",
    "Programming Language :: Python :: 3.9",
    "Programming Language :: Python :: 3.10",
    "Programming Language :: Python :: 3.11",
    "Programming Language :: Python :: 3.12",
    "Programming Language :: Python :: 3 :: Only",
    "License :: OSI Approved :: GNU General Public License v3 or later (GPLv3+)",
    "Development Status :: 3 - Alpha",
    "Environment :: Other Environment",
    "Intended Audience :: Science/Research",
    "Operating System :: POSIX",
    "Operating System :: MacOS :: MacOS X",
    "Operating System :: Microsoft :: Windows",
    "Topic :: Scientific/Engineering",
    "Topic :: Scientific/Engineering :: Bio-Informatics",
]
keywords = [
    "population genetics",
    "tree sequence",
    "ancestral recombination graph",
    "evolutionary tree",
    "inference",
    "tsinfer",
]
dependencies = [
    "numpy>=1.23.5",
    "six",
    "tqdm",
    "humanize",
    "daiquiri",
    "tskit>=0.5.3",
    "numcodecs>=0.6",
    "zarr>=2.2,!=2.11.0,!=2.11.1,!=2.11.2,<3",
    "lmdb",
    "sortedcontainers",
    "attrs>=19.2.0",
    "dask[array]",
    "numba",
]

[project.urls]
Homepage = "https://tskit.dev/tsinfer"
Documentation = "https://tskit.dev/tsinfer/docs/stable"
Changelog = "https://tskit.dev/tsinfer/docs/stable/CHANGELOG.html"
"Bug Tracker" = "https://github.com/tskit-dev/tsinfer/issues"
"Source Code" = "https://github.com/tskit-dev/tsinfer/"

[project.scripts]
tsinfer = "tsinfer.__main__:main"

[tool.setuptools]
packages = ["tsinfer"]
include-package-data = true

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