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setup.py
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setup.py
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# Copyright (c) 2014. Mount Sinai School of Medicine
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from __future__ import print_function
import os
from setuptools import setup, find_packages
import versioneer
readme_filename = "README.md"
current_directory = os.path.dirname(__file__)
readme_path = os.path.join(current_directory, readme_filename)
readme = ""
try:
with open(readme_path, 'r') as f:
readme = f.read()
except Exception as e:
print(e)
print("Failed to open %s" % readme_path)
try:
import pypandoc
readme = pypandoc.convert(readme, to='rst', format='md')
except Exception as e:
print(e)
print("Failed to convert %s from Markdown to reStructuredText" % readme_filename)
if __name__ == '__main__':
cmdclass = versioneer.get_cmdclass()
print("Command class = %s" % cmdclass)
version = versioneer.get_version()
print("Version: %s" % version)
setup(
name='varcode',
packages=find_packages(),
version=version,
cmdclass=cmdclass,
description="Variant annotation in Python",
long_description=readme,
url="https://github.com/hammerlab/varcode",
author="Alex Rubinsteyn",
author_email="alex rubinsteyn at gmail's fine email service",
license="http://www.apache.org/licenses/LICENSE-2.0.html",
classifiers=[
'Development Status :: 3 - Alpha',
'Environment :: Console',
'Operating System :: OS Independent',
'Intended Audience :: Science/Research',
'License :: OSI Approved :: Apache Software License',
'Programming Language :: Python',
'Topic :: Scientific/Engineering :: Bio-Informatics',
],
install_requires=[
'numpy>=1.7, <2.0',
'pandas>=0.15',
'pyensembl>=1.0.0',
'biopython>=1.64',
'pyvcf>=0.6.7',
'memoized_property>=1.0.2',
'serializable>=0.0.8',
'sercol',
],
entry_points={
'console_scripts': [
'varcode-variants = varcode.cli.variants_script:main'
]
})