setup.py

from setuptools import setup, find_packages

with open("README.md", "r", encoding="utf-8") as fh:
    long_description = fh.read()

setup(
    name='pymCADRE',
    version='1.0.0',    
    description='The pymCADRE tool is an advanced re-implementation of the metabolic Context-specificity Assessed by Deterministic Reaction Evaluation (mCADRE) algorithm in Python. It constructs tissue-specific metabolic models by leveraging gene expression data and literature-based evidence, along with network topology information.',
    long_description=long_description,
    long_description_content_type="text/markdown",
    url='https://github.com/draeger-lab/pymCADRE',
    author='Nantia Leonidou',
    author_email='nantia.leonidou@uni-tuebingen.de',
    license=' GPL-3.0',
    packages=find_packages(where='pmCADRE_code/code', include=['check','prune','rank']),
    install_requires=['pandas',
                      'numpy',
                      'cobrapy',
                      'requests',
                      'os'
                      ],

    classifiers=[
        "Programming Language :: Python :: 3.8",
        "Topic :: Software Development :: Version Control :: Git",
        "Framework :: Jupyter",
        "Operating System :: MacOS",
        "Operating System :: Unix"
   
    ],
)