setup.py

from setuptools import setup
from os import path

this_directory = path.abspath(path.dirname(__file__))
with open(path.join(this_directory, "README.md"), "r") as fh:
    long_description = fh.read()

setup(
    name="phigaro",
    description="Phigaro is a scalable command-line tool for predicting phages and prophages.",
    long_description=long_description,
    long_description_content_type="text/markdown",
    version="2.4.0",
    license="MIT",
    author="E.Starikova, N.Pryanichnikov, P.Tikhonova",
    author_email="hed.robin@gmail.com",
    url="https://github.com/bobeobibo/phigaro",
    packages=[
        "phigaro",
        "phigaro.finder",
        "phigaro.cli",
        "phigaro.batch",
        "phigaro.batch.task",
        "phigaro.misc",
        "phigaro.to_html",
    ],
    package_data={"": ["*.json", "*.csv", "README.md"]},
    entry_points={
        "console_scripts": [
            "phigaro = phigaro.cli.batch:main",
            "phigaro-setup = phigaro.cli.helper:main",
        ]
    },
    install_requires=[
        "numpy",
        "six>=1.7.0",
        "pandas>=0.23.4",
        "sh",
        "singleton",
        "PyYAML>=5.1",
        "future",
        "argparse",
        "numpy",
        "plotly",
        "bs4",
        "beautifulsoup4>=4.4.0",
        "lxml",
        "biopython",
    ],
)