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setup.py
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setup.py
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import sys
from setuptools import setup, find_packages
from Cython.Build import cythonize
from PanPA.version import __version__
'''
I can also check for cython's version using
from Cython.Compiler.Version import version
now version is a string, e.g. 0.29.21
'''
'''
It is better to ship this without the need to have Cython
I should do what is described here
https://cython.readthedocs.io/en/latest/src/userguide/source_files_and_compilation.html
at section Distributing Cython Modules
The idea is that I use extensions and have a check whether I am requiring cython or not
'''
CURRENT_PYTHON = sys.version_info[:2]
REQUIRED_PYTHON = (3, 6)
if CURRENT_PYTHON < REQUIRED_PYTHON:
sys.stderr.write("PanPA requires Python 3.6 or higher and "
"you current verions is {}".format(CURRENT_PYTHON))
sys.exit(1)
with open("README.md", "r") as readme:
long_description = readme.read()
reqs = []
with open("requirements.txt", "r") as infile:
for l in infile:
if not l.startswith("#"):
reqs.append(l.strip())
setup(
name="PanPA",
version=__version__,
license="MIT",
author="Fawaz Dabbaghie",
url='https://fawaz-dabbaghieh.github.io/',
description="Building and aligning to protein graphs",
long_description=long_description,
long_description_content_type="text/markdown",
# keywords="proteins alignment graphs pangenome bioinformatics software",
classifiers=[
"Development Status :: 3 - Alpha",
# "License :: OSI Approved :: GNU General Public License v2 or later (GPLv2+)",
"Programming Language :: Python :: 3.6",
"Operating System :: POSIX :: Linux",
"Natural Language :: English",
"Intended Audience :: Science/Research",
"Topic :: Scientific/Engineering :: Bioinformatics",
],
setup_requires=reqs,
tests_require=['pytest'],
include_package_data=True,
python_requires=">=3.6",
packages=find_packages(),
install_requires=[],
ext_modules=cythonize("PanPA/*pyx", compiler_directives={"boundscheck": False, "cdivision": True,
"nonecheck": False, "initializedcheck": False,
"language_level": "3"}),
entry_points={
"console_scripts": ["PanPA = PanPA.main:main"],
},
)