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pyproject.toml
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pyproject.toml
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[tool.isort]
include_trailing_comma = true
multi_line_output = 3
profile = "black"
skip_glob = ["docs/*", "schierarchy/__init__.py"]
[tool.poetry]
authors = ["Artem Lomakin <[email protected]>", "Vitalii Kleshchevnikov <[email protected]>"]
classifiers = [
"Development Status :: 4 - Beta",
"Intended Audience :: Science/Research",
"Natural Language :: English",
"Programming Language :: Python :: 3.9",
"Programming Language :: Python :: 3.10",
"Operating System :: MacOS :: MacOS X",
"Operating System :: Microsoft :: Windows",
"Operating System :: POSIX :: Linux",
"Topic :: Scientific/Engineering :: Bio-Informatics",
]
description = "Hierachical cell identity toolkit."
documentation = "https://github.com/vitkl/schierarchy"
homepage = "https://github.com/vitkl/schierarchy"
license = "Apache License, Version 2.0"
name = "schierarchy"
packages = [
{include = "schierarchy"},
]
readme = "README.md"
version = "0.0.2"
[tool.poetry.dependencies]
anndata = ">=0.7.5"
black = {version = "==22.3.0", optional = true}
codecov = {version = ">=2.0.8", optional = true}
flake8 = {version = ">=3.7.7", optional = true}
importlib-metadata = {version = "^1.0", python = "<3.8"}
ipython = {version = ">=7.1.1", optional = true}
isort = {version = ">=5.7", optional = true}
jupyter = {version = ">=1.0", optional = true}
leidenalg = {version = "*", optional = true}
loompy = {version = ">=3.0.6", optional = true}
nbconvert = {version = ">=5.4.0", optional = true}
nbformat = {version = ">=4.4.0", optional = true}
nbsphinx = {version = "*", optional = true}
nbsphinx-link = {version = "*", optional = true}
pre-commit = {version = ">=2.7.1", optional = true}
pydata-sphinx-theme = {version = ">=0.4.0", optional = true}
pytest = {version = ">=4.4", optional = true}
python = ">=3.9.18"
python-igraph = {version = "*", optional = true}
scanpy = {version = ">=1.6", optional = true}
scanpydoc = {version = ">=0.5", optional = true}
scikit-misc = {version = ">=0.1.3", optional = true}
cell2location = {git = "https://github.com/BayraktarLab/cell2location.git@hires_sliding_window"}
pyro-ppl = {version = ">=1.8.0"}
scvi-tools = ">=1.0.0"
sphinx = {version = "^3.0", optional = true}
sphinx-autodoc-typehints = {version = "*", optional = true}
sphinx-rtd-theme = {version = "*", optional = true}
typing_extensions = {version = "*", python = "<3.8"}
[tool.poetry.extras]
dev = ["black", "pytest", "flake8", "codecov", "scanpy", "loompy", "jupyter", "nbformat", "nbconvert", "pre-commit", "isort"]
docs = [
"sphinx",
"scanpydoc",
"nbsphinx",
"nbsphinx-link",
"ipython",
"pydata-sphinx-theme",
"typing_extensions",
"sphinx-autodoc-typehints",
"sphinx-rtd-theme",
]
tutorials = ["scanpy", "leidenalg", "python-igraph", "loompy", "scikit-misc"]
[tool.poetry.dev-dependencies]
[build-system]
build-backend = "poetry.masonry.api"
requires = [
"poetry>=1.0",
"setuptools", # keep it here or "pip install -e" would fail
]