pyproject.toml

[tool.isort]
include_trailing_comma = true
multi_line_output = 3
profile = "black"
skip_glob = ["docs/*", "scgen/__init__.py"]

[tool.poetry]
authors = ["Mohammad lotfollahi <mohammad.lotfollahi@helmholtz-muenchen.de>"]
classifiers = [
  "Development Status :: 4 - Beta",
  "Intended Audience :: Science/Research",
  "Natural Language :: English",
  "Programming Language :: Python :: 3.8",
  "Programming Language :: Python :: 3.8",
  "Programming Language :: Python :: 3.10",
  "Operating System :: MacOS :: MacOS X",
  "Operating System :: Microsoft :: Windows",
  "Operating System :: POSIX :: Linux",
  "Topic :: Scientific/Engineering :: Bio-Informatics",
]
description = "ScGen - Predicting single cell perturbations."
documentation = "https://scgen.readthedocs.io"
homepage = "https://github.com/theislab/scgen"
license = "MIT"
name = "scgen"
packages = [
  {include = "scgen"},
]
readme = "README.md"
version = "2.1.1"

[tool.poetry.dependencies]
adjustText = "*"
anndata = ">=0.7.5"
black = {version = ">=20.8b1", 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}
matplotlib = "!=3.7.0"
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 = ">=3.8,<4.0"
python-igraph = {version = "*", optional = true}
scanpy = ">=1.6"
scanpydoc = {version = ">=0.5", optional = true}
scikit-misc = {version = ">=0.1.3", optional = true}
scvi-tools = ">=0.20.0"
seaborn = ">=0.11"
sphinx = {version = ">=4.1,<4.4", optional = true}
sphinx-autodoc-typehints = {version = "*", optional = true}
sphinx-material = {version = "*", optional = true}
typing_extensions = {version = "*", python = "<3.8"}

[tool.poetry.extras]
dev = ["black", "pytest", "flake8", "loompy", "jupyter", "nbformat", "nbconvert", "pre-commit", "isort"]
docs = [
  "sphinx",
  "scanpydoc",
  "nbsphinx",
  "nbsphinx-link",
  "ipython",
  "pydata-sphinx-theme",
  "typing_extensions",
  "sphinx-autodoc-typehints",
  "sphinx-material",
]
tutorials = ["leidenalg", "python-igraph", "loompy", "scikit-misc"]

[tool.poetry.dev-dependencies]

[build-system]
requires = [
  "poetry-core>=1.0.0",
]
build-backend = "poetry.core.masonry.api"