pyproject.toml

[tool.poetry]
name = "discern-reconstruction"
packages=[{include = "discern"}]
version = "0.1.1"
description = "Wasserstein Auto-Encoder for expression reconstruction"
license= "MIT"
readme = "README.rst"
homepage = "https://discern.readthedocs.io/en/latest/quickinfo.html"
repository = "https://github.com/imsb-uke/discern"
authors = [
"Fabian Hausmann <fabian.hausmann@zmnh.uni-hamburg.de>",
"Can Ergen <can.ergen@zmnh.uni-hamburg.de>",
"Pierre Machart <pierre.machart@zmnh.uni-hamburg.de>",
]

build = "build.py"

[tool.poetry.dependencies]
python = "^3.6.9"
ray = {extras = ["default", "tune"], version = ">=1.6.0,<1.7.0"}
hyperopt = "^0.2.3"
scanpy = "^1.6.0"
tensorflow = "2.1.0"
tensorflow-addons = "^0.7.1"
Cython = "^0.29.16"
scikit-learn = "^0.23.1"
llvmlite = "<0.35.0"
ipykernel = {version = "^5.5.0", optional = true}
joblib = "^1.0.1"
click = "^7.1.2"
Sphinx = {version = "^4.1.1", optional = true}
sphinx-rtd-theme = {version = "^0.5.2", optional = true}
toml = {version =  "^0.10.2", optional = true}

[tool.poetry.dev-dependencies]
ray = {extras = ["debug"], version = ">=1.6.0,<1.7.0"}
pytest = "^5.3.5"
pytest-cov = "^2.8.1"
pytest-xdist = "^1.31.0"
mypy = "^0.782"
pylint = "^2.5.0"
yapf = "^0.30.0"
pydocstyle = "^5.0.2"
pytest-rerunfailures = "^9.0"
rope = "^0.18.0"
vulture = "^2.3"
rstcheck = {version = "^3.3.1", optional = true}

[tool.poetry.extras]
jupyter = ["ipykernel"]
doc = ["Sphinx", "rstcheck","sphinx_rtd_theme","toml"]

[tool.poetry.scripts]
merge_parameter = "discern._scripts.merge_parameters:main"
discern =  "discern.__main__:main"

[tool.pylint.messages_control]
disable = "import-error"
[build-system]
requires = ["poetry_core>=1.0.0","Cython", "numpy<1.20.0","setuptools"]
build-backend = "poetry.core.masonry.api"

[tool.vulture]
make_whitelist = false
min_confidence = 80
ignore_names = ["unused_*"]
paths = ["discern", "ray_hyperpara.py", ".vulture_whitelist.py"]
sort_by_size = true
verbose = false