import versioneer
import setuptools
import pkg_resources
# Check for existing OpenCV installation
opencv_pkg = None
try:
pkg_resources.get_distribution("opencv-python-headless")
opencv_pkg = "opencv-python-headless"
except pkg_resources.DistributionNotFound:
try:
pkg_resources.get_distribution("opencv-python")
opencv_pkg = "opencv-python"
except pkg_resources.DistributionNotFound:
opencv_pkg = "opencv-python-headless" # Default to headless if neither is installed
with open("README.md", "r") as fh:
long_description = fh.read()
setuptools.setup(
name="slideflow",
version=versioneer.get_version(),
cmdclass=versioneer.get_cmdclass(),
author="James Dolezal",
author_email="james@slideflow.ai",
description="Deep learning tools for digital histology",
long_description=long_description,
long_description_content_type="text/markdown",
url="https://github.com/slideflow/slideflow",
packages=setuptools.find_packages(),
scripts=['scripts/slideflow-studio'],
classifiers=[
"Programming Language :: Python :: 3",
"License :: OSI Approved :: Apache Software License",
"Operating System :: OS Independent",
],
package_data = {
'slideflow': [
'norm/norm_tile.jpg',
'slide/slideflow-logo-name-small.jpg',
'studio/gui/fonts/DroidSans.ttf',
'studio/gui/fonts/DroidSans-Bold.ttf',
'studio/gui/icons/error.png',
'studio/gui/icons/info.png',
'studio/gui/icons/logo.png',
'studio/gui/icons/success.png',
'studio/gui/icons/warn.png',
'studio/gui/icons/search.png',
'studio/gui/icons/filter.png',
'studio/gui/splash.png',
'studio/gui/logo_dark_outline.png',
'studio/gui/buttons/button_extensions_highlighted.png',
'studio/gui/buttons/button_extensions_highlighted.png',
'studio/gui/buttons/button_add_freehand.png',
'studio/gui/buttons/button_add_polygon.png',
'studio/gui/buttons/button_camera.png',
'studio/gui/buttons/button_camera_highlighted.png',
'studio/gui/buttons/button_circle_plus.png',
'studio/gui/buttons/button_slide_highlighted.png',
'studio/gui/buttons/button_project_highlighted.png',
'studio/gui/buttons/small_button_cucim.png',
'studio/gui/buttons/button_extensions_highlighted.png',
'studio/gui/buttons/button_mosaic.png',
'studio/gui/buttons/button_stylegan.png',
'studio/gui/buttons/button_heatmap_highlighted.png',
'studio/gui/buttons/button_cellseg.png',
'studio/gui/buttons/button_floppy.png',
'studio/gui/buttons/small_button_vips.png',
'studio/gui/buttons/button_cellseg_highlighted.png',
'studio/gui/buttons/small_button_folder.png',
'studio/gui/buttons/button_mosaic_highlighted.png',
'studio/gui/buttons/button_stylegan_highlighted.png',
'studio/gui/buttons/small_button_ellipsis.png',
'studio/gui/buttons/button_model_loaded_highlighted.png',
'studio/gui/buttons/button_circle_lightning_highlighted.png',
'studio/gui/buttons/small_button_lowmem.png',
'studio/gui/buttons/button_circle_plus_highlighted.png',
'studio/gui/buttons/button_heatmap.png',
'studio/gui/buttons/button_extensions.png',
'studio/gui/buttons/button_pencil_highlighted.png',
'studio/gui/buttons/button_pencil.png',
'studio/gui/buttons/small_button_ellipsis_highlighted.png',
'studio/gui/buttons/button_circle_lightning.png',
'studio/gui/buttons/button_folder_highlighted.png',
'studio/gui/buttons/button_gear_highlighted.png',
'studio/gui/buttons/button_model_loaded.png',
'studio/gui/buttons/button_model_highlighted.png',
'studio/gui/buttons/button_segment.png',
'studio/gui/buttons/button_segment_highlighted.png',
'studio/gui/buttons/small_button_verified.png',
'studio/gui/buttons/button_model.png',
'studio/gui/buttons/button_folder.png',
'studio/gui/buttons/button_floppy_highlighted.png',
'studio/gui/buttons/button_project.png',
'studio/gui/buttons/small_button_refresh.png',
'studio/gui/buttons/button_slide.png',
'studio/gui/buttons/small_button_gear.png',
'studio/gui/buttons/button_gear.png',
'studio/gui/buttons/button_mil.png',
'studio/gui/buttons/button_mil_highlighted.png',
'gan/stylegan2/stylegan2/torch_utils/ops/bias_act.cpp',
'gan/stylegan2/stylegan2/torch_utils/ops/bias_act.cu',
'gan/stylegan2/stylegan2/torch_utils/ops/bias_act.h',
'gan/stylegan2/stylegan2/torch_utils/ops/upfirdn2d.cpp',
'gan/stylegan2/stylegan2/torch_utils/ops/upfirdn2d.cu',
'gan/stylegan2/stylegan2/torch_utils/ops/upfirdn2d.h',
'gan/stylegan3/stylegan3/torch_utils/ops/bias_act.cpp',
'gan/stylegan3/stylegan3/torch_utils/ops/bias_act.cu',
'gan/stylegan3/stylegan3/torch_utils/ops/bias_act.h',
'gan/stylegan3/stylegan3/torch_utils/ops/upfirdn2d.cpp',
'gan/stylegan3/stylegan3/torch_utils/ops/upfirdn2d.cu',
'gan/stylegan3/stylegan3/torch_utils/ops/upfirdn2d.h',
'gan/stylegan3/stylegan3/torch_utils/ops/filtered_lrelu.cpp',
'gan/stylegan3/stylegan3/torch_utils/ops/filtered_lrelu.cu',
'gan/stylegan3/stylegan3/torch_utils/ops/filtered_lrelu.h',
'gan/stylegan3/stylegan3/torch_utils/ops/filtered_lrelu_ns.cu',
'gan/stylegan3/stylegan3/torch_utils/ops/filtered_lrelu_rd.cu',
'gan/stylegan3/stylegan3/torch_utils/ops/filtered_lrelu_wr.cu',
],
},
python_requires='>=3.7',
install_requires=[
'gast>=0.3.3',
'scipy',
'scikit-learn',
'matplotlib>=3.2',
'imageio',
opencv_pkg,
'shapely',
'umap-learn',
'seaborn<0.14',
'pandas',
'pyvips',
'fpdf2',
'scikit-image',
'tqdm',
'click',
'protobuf<3.21',
'tensorboard',
'crc32c',
'numpy',
'tabulate',
'rasterio',
'smac==1.4.0',
'ConfigSpace',
'rich',
'pillow>=6.0.0',
'imgui>=2.0.0',
'pyopengl',
'glfw',
'saliency',
'pyperclip',
'requests',
'parameterized',
'zarr',
'gdown',
'triangle',
'pyarrow'
],
extras_require={
'tf': [
'tensorflow>=2.7,<2.12',
'tensorflow_probability<0.20',
'tensorflow_datasets<4.9.0'
],
'torch': [
'torch',
'torchvision',
'pretrainedmodels',
'cellpose<2.2',
'spacy<3.8',
'fastai',
'pytorch-lightning',
'timm',
'segmentation-models-pytorch'
],
'dev': [
'sphinx',
'sphinx-markdown-tables',
'sphinxcontrib-video',
'pygments-csv-lexer'
],
'cucim': [
'cucim'
],
'cellpose': [
'cellpose<2.2',
],
'all': [
'cellpose<2.2',
'cucim',
'sphinx',
'sphinx-markdown-tables',
'sphinxcontrib-video',
'pygments-csv-lexer',
'torch',
'torchvision',
'spacy<3.8',
'fastai',
'pretrainedmodels',
'tensorflow>=2.7,<2.12',
'tensorflow_probability<0.20',
'tensorflow_datasets',
]
},
)
Datasets
Models
