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setup.py
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setup.py
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from setuptools import setup, find_packages
with open("README.md", "r") as readme_file:
readme = readme_file.read()
with open("requirements.txt", "rt", encoding="utf-8") as fh:
requirements = [line.strip() for line in fh.readlines()]
setup(
name="sc-dandelion",
use_scm_version={
"write_to": "dandelion/logging/version.py",
"write_to_template": "# coding: utf-8\n# file generated by setuptools_scm\n# don't change, don't track in version control\n__version__ = '{version}'.split('+')[0]",
"tag_regex": r"^(?P<prefix>v)?(?P<version>[^\+]+)(?P<suffix>.*)?$",
},
author="zktuong",
author_email="z.tuong@uq.edu.au",
description="sc-TCR/BCR-seq analysis tool",
long_description=readme,
long_description_content_type="text/markdown",
url="https://github.com/zktuong/dandelion/",
packages=find_packages(),
setup_requires=["setuptools>=45", "wheel", "setuptools_scm[toml]>=6.0"],
install_requires=requirements,
extras_require={
"docs": [
"airr",
"biopython",
"changeo",
"presto",
"pyyaml",
"yamlordereddictloader",
"sphinx<7", # see issue at https://github.com/readthedocs/readthedocs.org/issues/10279
"nbsphinx<=0.9.2",
"sphinx-autodoc-typehints<=2.4.4",
"sphinx_rtd_theme<=3.0.1",
"readthedocs-sphinx-ext<=2.2.5",
"recommonmark<=0.7.1",
],
"scirpy": ["scirpy<=0.18.0", "awkward", "mudata"],
},
package_data={
"dandelion": ["bin/tigger-genotype.R", "bin/MakeDb_gentle.py"]
},
data_files=[("bin", ["bin/tigger-genotype.R", "bin/MakeDb_gentle.py"])],
include_package_data=True,
classifiers=[
"Programming Language :: Python :: 3.10",
"Programming Language :: Python :: 3.11",
"Programming Language :: Python :: 3.12",
"License :: OSI Approved :: GNU Affero General Public License v3 or later (AGPLv3+)",
],
zip_safe=False,
)