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import os
from glob import glob
import sys
import re
from setuptools import setup, find_packages
import pkg_resources
__pkg_name__ = 'pychopper'
__author__ = 'cwright'
__description__ = 'Identify, orient, and trim full-length ONT cDNA reads.'
# Use readme as long description and say its github-flavour markdown
from os import path
this_directory = path.abspath(path.dirname(__file__))
kwargs = {'encoding':'utf-8'} if sys.version_info.major == 3 else {}
with open(path.join(this_directory, 'README.md'), **kwargs) as f:
__long_description__ = f.read()
__long_description_content_type__ = 'text/markdown'
__path__ = os.path.dirname(__file__)
__pkg_path__ = os.path.join(os.path.join(__path__, __pkg_name__))
# Get the version number from __init__.py
verstrline = open(os.path.join(__pkg_name__, '__init__.py'), 'r').read()
vsre = r"^__version__ = ['\"]([^'\"]*)['\"]"
mo = re.search(vsre, verstrline, re.M)
if mo:
__version__ = mo.group(1)
else:
raise RuntimeError('Unable to find version string in "{}/__init__.py".'.format(__pkg_name__))
dir_path = os.path.dirname(__file__)
with open(os.path.join(dir_path, 'requirements.txt')) as fh:
install_requires = [
str(requirement) for requirement in
pkg_resources.parse_requirements(fh)]
data_files = []
extra_requires = {}
extensions = []
pymajor, pyminor = sys.version_info[0:2]
if (pymajor < 3):
raise RuntimeError(
'`pychopper` is unsupported on Python version < 3.')
setup(
name=__pkg_name__,
version=__version__,
url='https://github.com/epi2me-labs/{}'.format(__pkg_name__),
author=__author__,
author_email='{}@nanoporetech.com'.format(__author__),
description=__description__,
long_description=__long_description__,
long_description_content_type=__long_description_content_type__,
dependency_links=[],
ext_modules=extensions,
install_requires=install_requires,
tests_require=[].extend(install_requires),
extras_require=extra_requires,
packages=[
'pychopper',
'pychopper.scripts',
'pychopper.phmm_data',
'pychopper.primer_data'
],
package_dir={'pychopper': 'pychopper'},
package_data={'pychopper': ['primer_data/*.fas', 'phmm_data/*.*']},
zip_safe=False,
data_files=data_files,
# scripts=[x for x in glob('scripts/*.py') if x != 'scripts/__init__.py']
entry_points ={
'console_scripts': [
'pychopper=pychopper.scripts.pychopper:main'
]
}
)
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