setup.py

#! /usr/bin/env python

import sys
import os
import glob


# take care of extra required modules depending on Python version
extra = {}

try:
    from setuptools import setup
    if sys.version_info < (2, 7):
        extra['install_requires'] = ['argparse']
    if sys.version_info >= (3,):
        extra['use_2to3'] = True
except ImportError:
    from distutils.core import setup
    if sys.version_info < (2, 7):
        extra['dependencies'] = ['argparse']

with open(os.path.join("ngs_toolkit", "_version.py"), 'r') as handle:
    version = handle.readline().split()[-1].strip("\"'\n")

requirements = open("requirements.txt").read().strip().split("\n")
requirements = [r for r in requirements if not r.startswith("#")]
requirements = [r for r in requirements if "#egg=" not in r]
# dependencies = list()
# for i, r in enumerate(requirements):
#     if "#egg=" in r:
#         n = r[r.index('#egg=') + 5:]
#         v = r[r.index('/v') + 1:r.index('#egg=')]
#         requirements[i] = n
#         dependencies.append(
#             'https://github.com/epigen/looper/tarball/{v}#egg={n}-{v}'.format(n=n, v=v))


# recipes
recipes = list(map(
    os.path.abspath,
    glob.glob(os.path.join(os.path.curdir, "ngs_toolkit", "recipes", "*.py"))))

# setup
setup(
    name="ngs_toolkit",
    packages=["ngs_toolkit"],
    version=version,
    entry_points={
        "console_scripts": [
            'projectmanager = ngs_toolkit.project_manager:main',
            'trackmanager = ngs_toolkit.track_manager:main'
        ],
    },
    description="A toolkit for NGS analysis with Python.",
    long_description=open('README.md').read(),
    classifiers=[
        "Development Status :: 3 - Alpha",
        "License :: OSI Approved :: GNU General Public License v3 or later (GPLv3+)",
        "Programming Language :: Python :: 2.7",
        "Topic :: Scientific/Engineering :: Bio-Informatics"
    ],
    keywords="bioinformatics, sequencing, ngs, ngs analysis, ATAC-Seq, ChIP-seq, RNA-seq, project management",
    url="https://github.com/afrendeiro/toolkit",
    author=u"Andre Rendeiro",
    author_email = 'afrendeiro@gmail.com',
    license="GPL3",
    install_requires=requirements,
    scripts=recipes,
    # dependency_links=dependencies,
    **extra
)