setup.py

from setuptools import setup, find_packages
import os
import sys
from io import open


name = 'pyham'
requirements = ['ete3 >= 3.1', 'six', 'lxml', 'future', 'requests', 'tqdm']
if sys.version_info > (3, 3):
    # ete3 uses some py3 incompatible types if scipy is not present
    requirements.extend(['scipy'])
if sys.version_info < (3, 5):
    requirements.extend(['numpy'])

__version__ = "Undefined"
for line in open('{}/__init__.py'.format(name.lower())):
    if line.startswith('__version__'):
        exec(line.strip())

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

# Get the long description from the README file
with open(os.path.join(here, 'README.rst'), encoding='utf-8') as f:
    long_description = f.read()

setup(
    name=name,

    version=__version__,

    author='Dessimoz Lab - Laboratory of Computational Evolutionary Biology and Genomics',
    author_email='adrian.altenhoff@inf.ethz.ch',

    description='A tool to analyse Hierarchical Orthologous Groups (HOGs)',
    long_description=long_description,
    keywords=['orthology, HOGs, orthoxml'],

    url='http://lab.dessimoz.org/ham',

    license='MIT',

    classifiers=[
         'Development Status :: 5 - Production/Stable',
         'Environment :: Console',
         'Intended Audience :: Developers',
         'Intended Audience :: Science/Research',
         'Topic :: Scientific/Engineering :: Bio-Informatics',
         'License :: OSI Approved :: MIT License',
         'Programming Language :: Python :: 2',
         'Programming Language :: Python :: 2.7',
         'Programming Language :: Python :: 3',
         'Programming Language :: Python :: 3.5',
         'Programming Language :: Python :: 3.6',
         'Programming Language :: Python :: 3.7',
         'Programming Language :: Python :: 3.8',
         'Programming Language :: Python :: 3.9',
         'Programming Language :: Python :: 3.10',
         'Programming Language :: Python :: 3.11',
         ],

    packages=find_packages(exclude=[]),
    install_requires=requirements,
    extras_require={
        'test': ['nose'],
        'dev': ['nose', 'sphinx', 'wheel', 'twine', 'fabric', 'fabric3'],
    }
)