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pyproject.toml
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[tool.poetry]
name = "convexgating"
version = "0.1.1" # <<COOKIETEMPLE_FORCE_BUMP>>
description = "ConvexGating is a Python tool to infer optimal gating strategies for flow cytometry and cyTOF data."
authors = ["Vincent Friedrich <[email protected]>"]
license = "MIT"
readme = "README.rst"
homepage = "https://github.com/buettnerlab/convexgating"
repository = "https://github.com/buettnerlab/convexgating"
documentation = "https://convexgating.readthedocs.io"
packages = [
{ include = "convexgating" },
]
classifiers = [
"Programming Language :: Python :: 3.7",
"Programming Language :: Python :: 3.8",
"Programming Language :: Python :: 3.9",
"Programming Language :: Python :: 3.10",
]
#dependencies = [
#"python ^3.7.0",
#"click >=8.0.0",
#"rich >=10.3.0",
#"PyYAML >=5.4.1",
#"numpy ==1.19.5",
#"pandas",
#"seaborn",
#"matplotlib",
#"numba",
#"scanpy >=1.5",
#"anndata >=0.7.2",
#"scipy",
#"scikit-learn",
#"scikit-misc",
#"umap-learn",
#"pydot",
#"python-igraph",
#"torch ==1.7.1",
#"tqdm",
#"tk"]
[tool.poetry.dependencies]
python = ">=3.8.0"
click = ">=8.0.0"
rich = ">=10.3.0"
PyYAML = ">=5.4.1"
numpy = "==1.19.5"
pandas = ">=1.3.0"
seaborn = ">=0.10.0"
matplotlib = ">=3.5.0"
torch = "==1.7.1"
scanpy = ">=1.5"
numba = ">=0.11.0"
anndata = ">=0.7.2"
scipy = ">=1.6.0"
scikit-learn = ">=1.1.1"
scikit-misc = ">=0.1.3"
umap-learn = ">=0.5.1"
pydot = ">=1.4.1"
python-igraph = ">=0.9.11"
tqdm = ">=4.62.0"
tk = ">=0.1.0"
#h5py "<3
[tool.poetry.dev-dependencies]
pytest = ">=6.2.3"
coverage = {extras = ["toml"], version = ">=5.3"}
safety = ">=1.9.0"
typeguard = ">=2.12.0"
xdoctest = {extras = ["colors"], version = ">=0.15.0"}
sphinx = ">=4.0.2"
sphinx-autobuild = ">=2021.3.14"
pre-commit = ">=2.11.1"
flake8 = ">=3.8.4"
black = ">=20.8b1"
flake8-bandit = ">=2.1.2"
flake8-bugbear = ">=21.4.3"
flake8-docstrings = ">=1.5.0"
flake8-rst-docstrings = ">=0.2.3"
pep8-naming = ">=0.11.1"
darglint = ">=1.5.8"
pre-commit-hooks = ">=4.0.1"
sphinx-rtd-theme = ">=0.5.0"
sphinx-click = ">=3.0.0"
Pygments = ">=2.8.1"
types-pkg-resources = ">=0.1.2"
types-requests = ">=2.25.2"
types-attrs = ">=19.1.0"
sphinx-rtd-dark-mode = ">=1.2.3"
Jinja2 = ">=3.0.1"
mypy = ">=0.910"
pyupgrade = ">=2.31.0"
[tool.poetry.scripts]
convexgating = "convexgating.__main__:main"
[tool.black]
line-length = 120
[tool.mypy]
strict = false
pretty = true
show_column_numbers = true
show_error_codes = true
show_error_context = true
ignore_missing_imports = true
[tool.isort]
multi_line_output=3
include_trailing_comma=true
balanced_wrapping=true
line_length=120
profile = "black"
[tool.coverage.paths]
source = ["convexgating", "*/site-packages"]
[tool.coverage.run]
branch = true
source = ["convexgating"]
[tool.coverage.report]
show_missing = true
[build-system]
requires = ["poetry-core>=1.0.0"]
build-backend = "poetry.core.masonry.api"