setup.py

import setuptools

#from distutils.command.install import INSTALL_SCHEMES

with open("README.md", "r") as fh:
    long_description = fh.read()

setuptools.setup(
    name="metaMATE", # Replace with your own username
    version="v0.4.3",
    author="Thomas J. Creedy",
    author_email="thomas.creedy@gmail.com",
    description="metaMATE: validated removal of pseudogenes and sequencing "
                "artefacts for mitochondrial metabarcoding",
    long_description=long_description,
    long_description_content_type="text/markdown",
    install_requires=[
        'biopython>=1.76',
        'scipy>=1.4.1'
        ],
    url="https://github.com/tjcreedy/metamate",
    packages=setuptools.find_packages(),
    classifiers=[
        "Programming Language :: Python :: 3",
        "Programming Language :: R",
        "License :: OSI Approved :: GNU General Public License (GPL)",
        "Development Status :: 4 - Beta",
        "Environment :: Console",
        "Intended Audience :: Science/Research",
        "Operating System :: OS Independent",
        "Topic :: Scientific/Engineering :: Bio-Informatics"
    ],
    python_requires='>=3.6',
    include_package_data=True,
    entry_points={
        "console_scripts":[
            "metamate = metamate.metamate:main",
            "metaMATE = metamate.metamate:main",
            "filtertranslate = metamate.filtertranslate:main"
            #"filterlength = metamate.filterlength:main"
            #"filterreference = metamate.filterreference:main"
            ]
        },
    scripts=[
            "metamate/maketree.R"
            ]
)

#TODO add url to published paper