https://github.com/hammerlab/vaxrank
Revision 23fe92f5dae04ead2d5d2df0231855eea1921926 authored by Alex Rubinsteyn on 19 August 2020, 19:40:48 UTC, committed by GitHub on 19 August 2020, 19:40:48 UTC
Use Isovar for all variant counts, change Python versions in tests to 3.6 and 3.7
Tip revision: 23fe92f5dae04ead2d5d2df0231855eea1921926 authored by Alex Rubinsteyn on 19 August 2020, 19:40:48 UTC
Merge pull request #191 from openvax/use-isovar-for-all-variant-counts
Merge pull request #191 from openvax/use-isovar-for-all-variant-counts
Tip revision: 23fe92f
setup.py
# 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 (absolute_import,)
import os
import logging
import re
from setuptools import setup
readme_dir = os.path.dirname(__file__)
readme_path = os.path.join(readme_dir, 'README.md')
try:
with open(readme_path, 'r') as f:
readme_markdown = f.read()
except:
logging.warn("Failed to load %s" % readme_path)
readme_markdown = ""
with open('vaxrank/__init__.py', 'r') as f:
version = re.search(
r'^__version__\s*=\s*[\'"]([^\'"]*)[\'"]',
f.read(),
re.MULTILINE).group(1)
if not version:
raise RuntimeError("Cannot find version information")
if __name__ == '__main__':
setup(
name='vaxrank',
version=version,
description="Mutant peptide ranking for personalized cancer vaccines",
author="Alex Rubinsteyn, Julia Kodysh",
author_email="alex@openvax.org, julia@openvax.org",
url="https://github.com/openvax/vaxrank",
license="http://www.apache.org/licenses/LICENSE-2.0.html",
classifiers=[
'Development Status :: 4 - Beta',
'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=[
'six',
'numpy>=1.14.0',
'pandas',
'pyensembl>=1.5.0',
'varcode>=0.5.9',
'isovar>=1.1.1',
'mhctools>=1.5.0',
'roman',
'jinja2',
'pdfkit',
'pypandoc',
'shellinford>=0.3.4',
'xlrd',
'xlsxwriter',
'xvfbwrapper',
'future>=0.16.0', # needed by pylint
'astropy',
],
long_description=readme_markdown,
long_description_content_type='text/markdown',
packages=['vaxrank'],
package_data={'vaxrank': ['templates/*', 'data/*', 'logging.conf']},
entry_points={
'console_scripts': [
'vaxrank = vaxrank.cli:main'
]
}
)
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