setup.py

import setuptools

setuptools.setup(
    name="calicost",
    version="v1.0.0",
    python_requires=">=3.8",
    packages=["calicost"],
    package_dir={"": "src"},
    author="Cong Ma",
    author_email="congma@princeton.edu",
    description="Allele-specific CNAs and spatial cancer clone inference",
    long_description="CalicoST infers allele-specific copy number aberrations and cancer clones in spatially resolved transcriptomics data",
    url="https://github.com/raphael-group/CalicoST",
    install_requires=[
        "numpy==1.24.4",
        "scipy==1.11.3",
        "pandas==2.1.1",
        "scikit-learn==1.3.2",
        "scanpy==1.9.6",
        "anndata==0.10.3",
        "numba==0.60.0",
        "tqdm==4.66.1",
        "statsmodels==0.14.0",
        "networkx==3.2.1",
        "matplotlib==3.7.3",
        "seaborn==0.12.2",
        "pysam==0.22.1",
        "ete3==3.1.3",
        "ipykernel",
    ],
    include_package_data=True,
)