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pyproject.toml
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pyproject.toml
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[build-system]
requires = ["setuptools", "wheel"]
build-backend = "setuptools.build_meta"
[project]
name = "metaspace-converter"
version = "1.1.1"
authors = [
{name = "Tim Daniel Rose", email = "[email protected]"},
{name = "Andreas Eisenbarth", email = "[email protected]"},
]
description = "Convert Metaspace datasets to AnnData"
requires-python = ">=3.9"
license = {text = "Apache-2.0"}
classifiers = [
"License :: OSI Approved :: Apache Software License",
"Topic :: Scientific/Engineering :: Bio-Informatics",
"Intended Audience :: Science/Research",
"Natural Language :: English",
"Operating System :: MacOS",
"Operating System :: Microsoft :: Windows",
"Operating System :: POSIX :: Linux",
"Programming Language :: Python :: 3",
"Programming Language :: Python :: 3.9",
"Programming Language :: Python :: 3.10",
"Programming Language :: Python :: 3.11",
]
dependencies = [
"anndata>=0.9.2",
"metaspace2020>=2.0.6",
"numpy",
"pandas",
"spatial-image>=0.3",
"spatialdata>=0.0.15",
]
dynamic = ["readme"]
[project.optional-dependencies]
test = [
"multiscale-spatial-image>=0.11",
"pytest>=7.2",
"pytest-cov>=4.1",
]
docs = [
"sphinx~=7.2",
"sphinx-autodoc-typehints",
"sphinx-codeautolink",
"sphinx-copybutton",
"sphinx-rtd-theme",
# # For notebooks
# "myst-nb",
# "ipython~=8.6.0",
# For example code in documentation
"scanpy~=1.9.6",
"spatialdata-plot~=0.0.6",
"squidpy~=1.3.1",
]
[project.urls]
Repository = "https://github.com/metaspace2020/metaspace-converter"
Source = "https://github.com/metaspace2020/metaspace-converter"
Documentation = "https://metaspace2020.github.io/metaspace-converter/"
# Publication = ""
[tool.setuptools.packages.find]
where = ["."]
[tool.setuptools.exclude-package-data]
"*" = ["metaspace_converter/tests"]
[tool.setuptools.dynamic]
readme = {file = "README.md", content-type = "text/markdown"}
[tool.black]
line-length = 100
target-version = ['py38']
skip-magic-trailing-comma = true
include = '\.(pyi?|ipynb)$'
exclude = '''
^/(
(
\.eggs # exclude a few common directories in the
| \.git # root of the project
| \.mypy_cache
| \.pytest_cache
| build
| dist
)
)/
'''
[tool.isort]
combine_as_imports = true
filter_files = true
line_length = 100
profile = "black"
[tool.pycln]
all = true
[tool.pytest.ini_options]
minversion = "6.0"
# CLI options:
# -ra: Show extra test summary for (a)ll except passed
# --quiet: Decrease verbosity
# --doctest*: Run example code in docs
addopts = '-ra --quiet'
filterwarnings = [
# Triggered by spatialdata==0.0.15
"ignore:is_categorical_dtype is deprecated and will be removed in a future version:FutureWarning:spatialdata",
# Triggered by xarray-schema==0.0.3
"ignore:pkg_resources is deprecated as an API:DeprecationWarning:xarray_schema",
# Triggered by matplotlib<3.8.0, xarray-schema==0.0.3
"ignore:Deprecated call to `pkg_resources.declare_namespace:DeprecationWarning:pkg_resources",
]