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# -*- coding: utf-8 -*-
"""Setup module for Bio2BEL miRTarBase."""
import codecs
import os
import re
import setuptools
PACKAGES = setuptools.find_packages(where='src')
META_PATH = os.path.join('src', 'bio2bel_mirtarbase', '__init__.py')
KEYWORDS = ['Biological Expression Language', 'Micro-RNA', 'Systems Biology', 'Networks Biology']
CLASSIFIERS = [
'Development Status :: 4 - Beta',
'Environment :: Console',
'Intended Audience :: Developers',
'Intended Audience :: Science/Research',
'Operating System :: OS Independent',
'Programming Language :: Python',
'Programming Language :: Python :: 3 :: Only',
'Programming Language :: Python :: 3.6',
'Programming Language :: Python :: 3.7',
'Topic :: Scientific/Engineering :: Bio-Informatics',
'License :: OSI Approved :: MIT License',
]
INSTALL_REQUIRES = [
'pybel>=0.13.0',
'bio2bel>=0.2.0,<0.3.0',
'bio2bel_hgnc>=0.2.3',
'bio2bel_entrez>=0.2.1',
'bio2bel_mirbase>=0.1.1',
'pandas',
'sqlalchemy',
'xlrd',
'click',
'tqdm',
]
EXTRAS_REQUIRE = {
'web': [
'flask',
'flask_admin',
],
'docs': [
'flask',
'flask_admin',
'sphinx',
'sphinx-rtd-theme',
'sphinx-click',
'sphinx-autodoc-typehints',
],
}
ENTRY_POINTS = {
'bio2bel': [
'mirtarbase = bio2bel_mirtarbase',
],
'console_scripts': [
'bio2bel_mirtarbase = bio2bel_mirtarbase.cli:main',
]
}
HERE = os.path.abspath(os.path.dirname(__file__))
def read(*parts):
"""Build an absolute path from *parts* and return the contents of the resulting file. Assume UTF-8 encoding."""
with codecs.open(os.path.join(HERE, *parts), 'rb', 'utf-8') as f:
return f.read()
META_FILE = read(META_PATH)
def find_meta(meta):
"""Extract __*meta*__ from META_FILE."""
meta_match = re.search(
r'^__{meta}__ = ["\']([^"\']*)["\']'.format(meta=meta),
META_FILE, re.M
)
if meta_match:
return meta_match.group(1)
raise RuntimeError('Unable to find __{meta}__ string'.format(meta=meta))
def get_long_description():
"""Get the long_description from the README.rst file. Assume UTF-8 encoding."""
with codecs.open(os.path.join(HERE, 'README.rst'), encoding='utf-8') as f:
long_description = f.read()
return long_description
if __name__ == '__main__':
setuptools.setup(
name=find_meta('title'),
version=find_meta('version'),
description=find_meta('description'),
long_description=get_long_description(),
url=find_meta('url'),
author=find_meta('author'),
author_email=find_meta('email'),
maintainer=find_meta('author'),
maintainer_email=find_meta('email'),
license=find_meta('license'),
classifiers=CLASSIFIERS,
keywords=KEYWORDS,
packages=PACKAGES,
package_dir={'': 'src'},
install_requires=INSTALL_REQUIRES,
extras_require=EXTRAS_REQUIRE,
entry_points=ENTRY_POINTS,
zip_safe=False,
)
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