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setup.py
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setup.py
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# Lib
from setuptools import setup, find_packages
exec(open('methylcheck/version.py').read())
test_requirements = [
'methylprep', # this is not REQUIRED but some functions in unit testing do require it, so in extras.
'pytest',
'pytest-pep8',
'pytest-cov',
'flake8',
'coverage',
'xlrd',
'coveralls', # replaces python-coveralls. note that installing both in same environment will break it.
'sphinxcontrib-apidoc',
'm2r',
'nbsphinx',
'sphinx',
'ipykernel',
]
# note: ANY param must fit on a single line or twine breaks.
setup(
name='methylcheck',
version=__version__,
description="""Quality Control (QC), Visualization/plotting, and postprocessing software for Illumina methylation array data. See https://life-epigenetics-methylcheck.readthedocs-hosted.com/en/latest/ for full documentation and examples.""",
long_description=open('README.md').read(),
long_description_content_type='text/markdown',
project_urls = {
"Documentation": "https://life-epigenetics-methylcheck.readthedocs-hosted.com/en/latest/",
"Source": "https://github.com/FOXOBioScience/methylcheck/",
"Funding": "https://FOXOBioScience.com/"
},
classifiers=[
'Development Status :: 5 - Production/Stable',
'Environment :: Console',
'License :: OSI Approved :: MIT License',
'Programming Language :: Python :: 3.7',
'Topic :: Scientific/Engineering :: Bio-Informatics',
'Topic :: Scientific/Engineering :: Medical Science Apps.',
'Framework :: Jupyter',
'Intended Audience :: Science/Research',
'Intended Audience :: Financial and Insurance Industry',
'Operating System :: MacOS :: MacOS X',
'Operating System :: Microsoft :: Windows',
'Operating System :: POSIX :: Linux',
],
keywords='methylation dna data processing epigenetics illumina',
url='https://github.com/FOXOBioScience/methylcheck',
license="MIT License",
author='Life Epigenetics',
author_email='info@FOXOBioScience.com',
packages=find_packages(),
include_package_data=True,
install_requires=[
'numpy',
'pandas >=1.3.0',
'statsmodels',
'matplotlib',
'seaborn',
'tqdm',
'joblib', # used by MDS only
'scikit-learn', # used by MDS only
'xlsxwriter', # bead array
'openpyxl', # pandas xlsx support changed to use this
],
extras_require={
'dev': test_requirements
},
setup_requires=['pytest-runner'],
tests_require= test_requirements,
entry_points={
'console_scripts': [
'methylcheck-cli = methylcheck.cli:cli_parser',
],
}
)