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pyproject.toml
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[build-system]
requires = [
"setuptools>=69.5.1"
]
build-backend = "setuptools.build_meta"
[project]
name = "stereopy"
description = 'Spatial transcriptomic analysis in python.'
requires-python = ">=3.8, <3.9"
license = {text = 'MIT License'}
authors = [
{name = "STOmics", email = "[email protected]"}
]
keywords = ["stereopy", "stereo"]
readme = 'README.md'
classifiers= [
'Natural Language :: English',
'License :: OSI Approved :: MIT License',
'Operating System :: POSIX :: Linux',
'Programming Language :: Python :: 3',
'Programming Language :: Python :: 3.8',
'Topic :: Scientific/Engineering :: Bio-Informatics',
'Topic :: Scientific/Engineering :: Visualization',
]
dynamic = ["version", "dependencies"]
[project.optional-dependencies]
image = [
"cell-bin==1.3.4.1",
"tensorflow==2.12.0",
"torch==2.4.1+cpu",
"torchvision==0.19.1+cpu",
"albumentations==1.3.1",
"patchify",
"fastremap",
"roifile",
"onnxruntime",
"tables"
]
image-cu11 = [
"cell-bin==1.3.4.1",
"tensorflow==2.12.0",
"torch==2.4.1+cu118",
"torchvision==0.19.1+cu118",
"albumentations==1.3.1",
"patchify",
"fastremap",
"roifile",
"onnxruntime-gpu",
"tables"
]
image-cu12 = [
"tensorflow==2.12.0",
"torch==2.4.1+cu124",
"torchvision==0.19.1+cu124",
"albumentations==1.3.1",
"patchify",
"fastremap",
"roifile",
"onnxruntime-gpu",
"tables"
]
singler-gpu = ["cusingler"]
spt = [
"torch==2.4.1+cpu",
"pysal<=2.6.0",
"pygam>=0.8.0",
"nbformat",
]
spt-cu11 = [
"torch==2.4.1+cu118",
"pysal<=2.6.0",
"pygam>=0.8.0",
"nbformat",
]
spt-cu12 = [
"torch==2.4.1+cu124",
"pysal<=2.6.0",
"pygam>=0.8.0",
"nbformat",
]
all = [
"stereopy[image]",
"stereopy[spt]"
]
all-cu11 = [
"stereopy[image-cu11]",
"stereopy[singler-gpu]",
"stereopy[spt-cu11]"
]
all-cu12 = [
"stereopy[image-cu12]",
"stereopy[singler-gpu]",
"stereopy[spt-cu12]"
]
[tool.setuptools.dynamic]
version = {attr = "stereo.common.version"}
dependencies = {file = "requirements.txt"}
[project.scripts]
ccd = "stereo.scripts.ccd:main"
[project.urls]
Homepage = "https://github.com/STOmics/Stereopy"
Documentation = "https://stereopy.readthedocs.io/en/latest/index.html"