setup.py

# ----------------------------------------------------------------------------
# Copyright (c) 2019, QIIME 2 development team.
#
# Distributed under the terms of the Modified BSD License.
#
# The full license is in the file LICENSE, distributed with this software.
# ----------------------------------------------------------------------------
#!/usr/bin/env python

from distutils.core import setup
from setuptools import find_packages
import sys
import re
import ast
from glob import glob


# version parsing from __init__ pulled from Flask's setup.py
# https://github.com/mitsuhiko/flask/blob/master/setup.py

# python version control from Flask's setup.py
# https://github.com/mitsuhiko/flask/blob/master/setup.py
CURRENT_PYTHON = sys.version_info[:2]
REQUIRED_PYTHON = (3, 6)

# This check and everything above must remain compatible with Python 2.7.
if CURRENT_PYTHON > REQUIRED_PYTHON or CURRENT_PYTHON < REQUIRED_PYTHON:
    sys.stderr.write("""
==========================
Unsupported Python version
==========================
This version of TADA requires Python {}.{}, but you're trying to
install it on Python {}.{}.
""".format(*(REQUIRED_PYTHON + CURRENT_PYTHON)))
    sys.exit(1)


_version_re = re.compile(r'__version__\s+=\s+(.*)')

with open('q2_feature_engineering/__init__.py', 'rb') as f:
    hit = _version_re.search(f.read().decode('utf-8')).group(1)
    __version__ = str(ast.literal_eval(hit))

long_description = ("TADA: phylogenetic augmentation of microbiome samples enhances phenotype classification")


setup(name='q2-feature-engineering',
      version=__version__,
      long_description=long_description,
      license='BSD-3-Clause',
      description='Qiime2 plugin to facilitate feature extraction for metagenomic analyses.',
      python_requires='>={}.{}'.format(*REQUIRED_PYTHON),
      author = 'Erfan Sayyari, Ban Kawas, Siavash Mirarab',
      author_email = 'smirarabbaygi@eng.ucsd.edu',
      url='https://github.com/tada-alg/TADA/',
      packages=find_packages(),
      install_requires=["dendropy>=4.0.0", "numpy>=1.14.0", "biom-format>=2.1.5","imbalanced-learn>=0.4.3",
                        "scikit-learn>=0.19.1",
                        "scipy>=1.0.0","pandas>=0.22.0", "treeswift", "niemads"],
      scripts=glob("q2_feature_engineering/scripts/*"),
      package_data={'q2_feature_engineering': ['citations.bib'],
                    '': ['data']},
      entry_points={
        'qiime2.plugins':
        ['q2-feature-engineering=q2_feature_engineering.plugin_setup:plugin']
      },
      classifiers=["Environment :: Console",
                     "Intended Audience :: Developers",
                     "Intended Audience :: Science/Research",
                     ("License :: OSI approved:: Berkeley Source Distribution"
                     "License (BSD)"),
                     "Natural Language :: English",
                     "Operating System :: POSIX :: Linux",
                     "Operating System :: MacOS :: MacOS X",
                     "Programming Language :: Python",
                     "Programming Language :: Python :: 3.6",
                     "Topic :: Scientific/Engineering :: Bio-Informatics"])