setup.py

import os
import sys
# from Cython.Build import cythonize


from distutils.core import setup
from setuptools import find_packages, Extension
from Cython.Build import cythonize


macros = []
extensions = [Extension("epic.src.find_islands", ["epic/src/find_islands.pyx"], define_macros=macros)]

from epic.version import __version__

install_requires = ["scipy", "pandas>=0.23.0", "numpy", "natsort", "joblib", "pyfaidx", "typing", "cython"]

if os.getenv("TRAVIS"):
    install_requires.append("coveralls")

if sys.version_info[0] == 2:
    install_requires.append("functools32")

setup(
    name="bioepic",
    packages=find_packages(),

    ext_modules = cythonize(extensions),
    scripts=["bin/epic", "bin/epic-effective", "bin/epic-overlaps", "bin/epic-merge", "bin/epic-cluster", "bin/epic-count", "bin/epic-blacklist"],
    package_data={'epic': ['scripts/effective_sizes/*.txt',
                           'scripts/chromsizes/*chromsizes',
                           'scripts/genome.snakefile'],
                  '': ['*.pyx', '*.pxd', '*.h', '*.c']},
    version=__version__,
    description="Chip-Seq broad peak/domain finder.",
    author="Endre Bakken Stovner",
    author_email="endrebak85@gmail.com",
    url="http://github.com/endrebak/epic",
    keywords=["ChIP-Seq"],
    license=["MIT"],
    install_requires=install_requires,
    classifiers=[
        "Programming Language :: Python :: 2.7",
        "Programming Language :: Python :: 3",
        "Development Status :: 4 - Beta",
        "Environment :: Other Environment", "Intended Audience :: Developers",
        "Intended Audience :: Science/Research",
        "License :: OSI Approved :: GNU General Public License v3 (GPLv3)",
        "Operating System :: POSIX :: Linux",
        "Operating System :: MacOS :: MacOS X",
        "Topic :: Scientific/Engineering"
    ],
    include_dirs=["."],
    long_description=
    ("Chip-Seq broad peak/domain finder based on SICER. See the url for more info."
     ))