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setup.cfg
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setup.cfg
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##########################
# Setup.py Configuration #
##########################
[metadata]
name = pyBiodatafuse
version = 1.0.0
description = A python package for integrating data from multiple resources
long_description = file: README.md
long_description_content_type = text/markdown
# URLs associated with the project
url = https://github.com/BioDataFuse/pyBiodatafuse
download_url = https://github.com/BioDataFuse/pyBiodatafuse/releases
project_urls =
Tracker = https://github.com/BioDataFuse/pyBiodatafuse/issues
Source = https://github.com/BioDataFuse/pyBiodatafuse
Documentation = https://pyBiodatafuse.readthedocs.io
# Author information
author = Yojana Gadiya
author_email = [email protected]
maintainer = Tooba Abbassi-Daloii
maintainer_email = [email protected]
# License Information
license = MIT
license_files =
LICENSE
# Search tags
classifiers =
Development Status :: 1 - Planning
Environment :: Console
Intended Audience :: Developers
License :: OSI Approved :: MIT License
Operating System :: OS Independent
Framework :: Pytest
Framework :: tox
Framework :: Sphinx
Programming Language :: Python
Programming Language :: Python :: 3.8
Programming Language :: Python :: 3.9
Programming Language :: Python :: 3.10
Programming Language :: Python :: 3.11
Programming Language :: Python :: 3 :: Only
# TODO add your topics from the Trove controlled vocabulary (see https://pypi.org/classifiers)
keywords =
snekpack
cookiecutter
drug-discvoery
knowledge graphs
# TODO add your own free-text keywords
[options]
install_requires =
pandas==2.0.3
tqdm==4.66.3
SPARQLWrapper
requests
click
matplotlib
seaborn==0.13.0
plotly==5.18.0
rdkit==2023.9.1
pubchempy==1.0.4
nbformat==5.9.2
networkx
xlrd>=2.0.1
neo4j>=5.14
numpy==1.24.4
tabulate==0.8.9
xgboost==1.7.4
parmap==1.6.0
scipy==1.10.1
scikit-learn==1.1.3
rdflib==7.0.0
shexer==2.5.9
bioregistry==0.11.10
# TODO your requirements go here
# Random options
zip_safe = false
include_package_data = True
python_requires = >=3.8
# Where is my code
packages = find:
package_dir =
= src
[options.packages.find]
where = src
[options.extras_require]
tests =
pytest
coverage
docs =
sphinx
sphinx-rtd-theme
sphinx-click
sphinx_automodapi
# To include LaTeX comments easily in your docs.
# If you uncomment this, don't forget to do the same in docs/conf.py
# texext
[options.entry_points]
console_scripts =
pyBiodatafuse = pyBiodatafuse.cli:main
######################
# Doc8 Configuration #
# (doc8.ini) #
######################
[doc8]
max-line-length = 120
##########################
# Coverage Configuration #
# (.coveragerc) #
##########################
[coverage:run]
branch = True
source = pyBiodatafuse
omit =
tests/*
docs/*
examples/*
[coverage:paths]
source =
src/pyBiodatafuse
.tox/*/lib/python*/site-packages/pyBiodatafuse
[coverage:report]
show_missing = True
exclude_lines =
pragma: no cover
raise NotImplementedError
if __name__ == "__main__":
if TYPE_CHECKING:
def __str__
def __repr__
##########################
# Darglint Configuration #
##########################
[darglint]
docstring_style = sphinx
strictness = short
#########################
# Flake8 Configuration #
# (.flake8) #
#########################
[flake8]
ignore =
S301
S403
S404
S603
W503
E203
S113
S101
E712
F401
C901
BLK100
I003
I004
I001
I005
S311
S605
T201
exclude =
.tox,
.git,
__pycache__,
docs/source/conf.py,
build,
dist,
tests/fixtures/*,
*.pyc,
*.egg-info,
.cache,
.eggs,
data
max-line-length = 7000
max-complexity = 20
import-order-style = pycharm
application-import-names =
pyBiodatafuse
tests