forked from PMBio/limix
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setup.cfg
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/
setup.cfg
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[metadata]
author = C. Lippert, D. Horta, F. P. Casale, and O. Stegle
author_email = horta@ebi.ac.uk
classifiers =
Development Status :: 5 - Production/Stable
Environment :: Console
Intended Audience :: Developers
License :: OSI Approved :: MIT License
Operating System :: OS Independent
Programming Language :: Python
description = Genetic analysis toolbox using mixed models
download_url = https://github.com/limix/limix
keywords = association, glmm, lmm, genetics
license = MIT
long_description = file: README.md
long_description_content_type = text/markdown
maintainer = Danilo Horta
platforms = Windows, MacOS, Linux
maintainer_email = horta@ebi.ac.uk
name = limix
url = https://github.com/limix/limix
version = attr: version.get
[options]
zip_safe = False
include_package_data = True
packages = find:
setup_requires =
pytest-runner>=4.4
install_requires =
appdirs>=1.4.3
asciitree>=0.3.3
bgen-reader>=3.0.5
blessings>=1.7
brent-search>=2.0.0
click>=7.0
colorama>=0.4.1
dask[array,dataframe]>=2.5.0
glimix-core>=3.1.8
h5py>=2.9.0
humanfriendly>=4.18
joblib>=0.13.2
limix-plot>=0.1.0
loguru>=0.3.1
matplotlib>=3.0.3
monotonic>=1.5
ndarray-listener>=2.0.0
netcdf4>=1.5.0.1
numba>=0.43.1
numpy-sugar>=1.5.0
numpy>=1.17.2
optimix>=3.0.3
pandas-plink>=2.0.1
pandas>=0.24.2,!=0.25.0rc0
pytest-doctestplus>=0.4.0
pytest-remfiles>=0.0.2
pytest>=4.4.1
qtoml>=0.2.4
scikit-learn>=0.20.3
scipy>=1.2.1
seaborn>=0.9.0
setuptools>=41.0.0
statsmodels>=0.9.0
tqdm>=4.31.1
xarray>=0.13.0
tests_requires =
pytest>=4.4.1
pytest-doctestplus>=0.3.0
pytest-remfiles>=0.0.2
[aliases]
test = pytest
[tool:pytest]
addopts =
-s
--doctest-plus
--doctest-rst
--doctest-modules
--doctest-glob="*.rst"
--text-file-format="rst"
--ignore="setup.py"
--ignore="doc/conf.py"
norecursedirs = .eggs .git *.egg-info build .ropeproject doc/_build .undodir doc/_generated limix/model/struct_lmm
doctest_plus = enabled
doctest_plus_atol = 1e-04
doctest_plus_rtol = 1e-04
doctest_optionflags = NORMALIZE_WHITESPACE IGNORE_EXCEPTION_DETAIL ELLIPSIS ALLOW_UNICODE FLOAT_CMP
pep8ignore = R0915
[tool:isort]
multi_line_output=3
include_trailing_comma=True
force_grid_wrap=0
combine_as_imports=True
line_length=88
[flake8]
ignore = E501 E741 E203 W503
exclude = doc/_build
[pylint]
disable = R0915
[rstcheck]
ignore_substitutions = today, version
ignore_directives = plot, autofunction, command-output, autmodule, automodule, autoclass, autoattribute, automethod, doctest
ignore_roles = class, mod
ignore_messages = Error in "math" directive