setup.py

from setuptools import setup
import os

script_directory = os.path.abspath(os.path.dirname(__file__))

package_name = "leviathan"
version = None
with open(os.path.join(script_directory, package_name, '__init__.py')) as f:
    for line in f.readlines():
        line = line.strip()
        if line.startswith("__version__"):
            version = line.split("=")[-1].strip().strip('"')
assert version is not None, f"Check version in {package_name}/__init__.py"

requirements = list()
with open(os.path.join(script_directory, 'requirements.txt')) as f:
    for line in f.readlines():
        line = line.strip()
        if line:
            if not line.startswith("#"):
                requirements.append(line)
                
setup(name='leviathan',
    version=version,
    description='Genome-resolved taxonomic and pathway profiling',
    url='https://github.com/jolespin/leviathan',
    author='Josh L. Espinoza',
    author_email='jol.espinoz@gmail.com',
    license='Academic Only',
    packages=["leviathan"],
    install_requires=requirements,
    include_package_data=False,
    scripts=[
        "bin/compile-manifest-from-veba.py",
        "bin/leviathan-preprocess.py",
        "bin/leviathan-index.py",
        "bin/leviathan-info.py",
        "bin/leviathan-merge.py",
        "bin/leviathan-profile-taxonomy.py",
        "bin/leviathan-profile-pathway.py",
    ],

)