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setup.cfg
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##########################
# Setup.py Configuration #
##########################
[metadata]
name = pathway-forte
version = 0.0.3-dev
description = A Python package for comparing the effect of pathway database choice in functional enrichment and classification methods
long_description = file: README.rst
url = https://github.com/pathwayforte
download_url = https://github.com/pathwayforte/pathway-forte
project_urls =
Bug Tracker = https://github.com/pathwayforte/pathway-forte/issues
Source Code = https://github.com/pathwayforte/pathway-forte
Documentation = https://pathway_forte.readthedocs.io
# Author information
author = Sarah Mubeen and Daniel Domingo-Fernández
author_email = [email protected]
maintainer = Daniel Domingo-Fernández
maintainer_email = [email protected]
# License Information
license = Apache 2.0 License
license_file = LICENSE
# Search tags
classifiers =
Development Status :: 4 - Beta
Environment :: Console
Intended Audience :: Developers
Intended Audience :: Science/Research
License :: OSI Approved :: Apache Software License
Operating System :: OS Independent
Programming Language :: Python
Programming Language :: Python :: 3.7
Programming Language :: Python :: 3.6
Programming Language :: Python :: 3 :: Only
Topic :: Scientific/Engineering :: Bio-Informatics
keywords =
Pathway Databases
Systems Biology
Networks Biology
Pathway Enrichment
Machine Learning
[options]
install_requires =
scikit-learn==0.20.2
pandas==0.23.4
tqdm
numpy==1.16.0
gseapy
click
seaborn
joblib
scikit-survival==0.7
bio2bel_reactome
bio2bel_kegg
bio2bel_wikipathways
statsmodels
# Random options
zip_safe = false
include_package_data = True
python_requires = >=3.6
# Where is my code
packages = find:
package_dir =
= src
[options.packages.find]
where = src
[options.extras_require]
docs =
sphinx
sphinx-rtd-theme
sphinx-click
sphinx-autodoc-typehints
[options.entry_points]
console_scripts =
pathway_forte = pathway_forte.cli:main
######################
# Doc8 Configuration #
# (doc8.ini) #
######################
[doc8]
max-line-length = 120
##########################
# Coverage Configuration #
# (.coveragerc) #
##########################
[coverage:run]
branch = True
source = pathway_forte
[coverage:report]
show_missing = True
exclude_lines =
def __str__
def __repr__