<filename>setup.py
import setuptools

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


setuptools.setup(
    name='fragalysis_api',
    version='0.0.5.1',
    author='<NAME> + Tyler',
    author_email="",
    description="A package to load PDBs into fragalysis format.",
    long_description=long_description,  # README_1.md file as description
    long_description_content_type="text/markdown",
    url="https://github.com/xchem/fragalysis-api",
    packages=setuptools.find_packages(),
    install_requires=['biopython',
                      'numpy',
                      'pandas',
                      'pypdb',
                      'matplotlib',
                      'scipy',
                      'fragalysis'],  # Install requirements extracted from requirements.txt
    include_package_data=True,  # Allow to include other files than .py in package
    package_data={
        '': ['fragalysis_api/xcimporter/non_ligs.json',
             'fragalysis_api/xcglobalscripts/config.ini']
    },  # Define which additional files should be included in package
    classifiers=[
        'Development Status :: 4 - Beta',
        "Programming Language :: Python :: 3.7",
        "License :: OSI Approved :: MIT License",
        "Operating System :: OS Independent",
    ],
    python_requires='>=3.6',
)

<filename>setup.py
import setuptools

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


setuptools.setup(
    name='fragalysis_api',
    version='0.0.5.1',
    author='<NAME> + Tyler',
    author_email="",
    description="A package to load PDBs into fragalysis format.",
    long_description=long_description,  # README_1.md file as description
    long_description_content_type="text/markdown",
    url="https://github.com/xchem/fragalysis-api",
    packages=setuptools.find_packages(),
    install_requires=['biopython',
                      'numpy',
                      'pandas',
                      'pypdb',
                      'matplotlib',
                      'scipy',
                      'fragalysis'],  # Install requirements extracted from requirements.txt
    include_package_data=True,  # Allow to include other files than .py in package
    package_data={
        '': ['fragalysis_api/xcimporter/non_ligs.json',
             'fragalysis_api/xcglobalscripts/config.ini']
    },  # Define which additional files should be included in package
    classifiers=[
        'Development Status :: 4 - Beta',
        "Programming Language :: Python :: 3.7",
        "License :: OSI Approved :: MIT License",
        "Operating System :: OS Independent",
    ],
    python_requires='>=3.6',
)

# README_1.md file as description # Install requirements extracted from requirements.txt # Allow to include other files than .py in package # Define which additional files should be included in package