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✨ Add WSI processing to EngineABC#737

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shaneahmed merged 123 commits intodev-define-engines-abcTissueImageAnalytics/tiatoolbox:dev-define-engines-abcfrom dev-update-engine-abc-wsiTissueImageAnalytics/tiatoolbox:dev-update-engine-abc-wsiCopy head branch name to clipboardApr 26, 2024

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Commits on Nov 10, 2023

• Updating engine_abc to support WSI

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• ruff basic checks addressed

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Commits on Nov 16, 2023

• Merge branch 'dev-define-engines-abc' into dev-update-engine-abc-wsi

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• Merge branch 'dev-define-engines-abc' of https://github.com/TissueImageAnalytics/tiatoolbox into dev-update-engine-abc-wsi

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Commits on Nov 17, 2023

• EngineABC updated with WSI mode

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• Merge branch 'dev-update-engine-abc-wsi' of https://github.com/TissueImageAnalytics/tiatoolbox into dev-update-engine-abc-wsi

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• Updating final file_dict logic for WSI mode in EngineABC

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Commits on Nov 21, 2023

• Preprocess images unified as the set_dataloader() method

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• Merge branch 'dev-update-engine-abc-wsi' of https://github.com/TissueImageAnalytics/tiatoolbox into dev-update-engine-abc-wsi

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Commits on Nov 22, 2023

• Fix lint errors

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• Merge branch 'dev-update-engine-abc-wsi' of https://github.com/TissueImageAnalytics/tiatoolbox into dev-update-engine-abc-wsi

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• Merge branch 'dev-define-engines-abc' into dev-update-engine-abc-wsi

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• Merge branch 'dev-define-engines-abc' into dev-update-engine-abc-wsi

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Commits on Nov 23, 2023

• Improving Unit test coverage: Merge Predictions

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• Merge branch 'dev-update-engine-abc-wsi' of https://github.com/TissueImageAnalytics/tiatoolbox into dev-update-engine-abc-wsi

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Commits on Nov 24, 2023

• Improving unit test cases: ioconfig

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• Improving unit test coverage: wsi_predictor_merge_predictions

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• Merge branch 'dev-update-engine-abc-wsi' of https://github.com/TissueImageAnalytics/tiatoolbox into dev-update-engine-abc-wsi

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Commits on Nov 27, 2023

• Improve EngineABC's post_process_wsi to support Annotation Store

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• Reverting classes_predicted and updating class_dict in tiatoolbox.utils.misc.dict_to_store() method

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Commits on Nov 30, 2023

• Merge branch 'dev-define-engines-abc' into dev-update-engine-abc-wsi

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• Update mypy-type-check.yml

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• Improving Zarr and Annotation Store tests in test_engine_abc

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• Fix lint error

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• Merge branch 'dev-update-engine-abc-wsi' of https://github.com/TissueImageAnalytics/tiatoolbox into dev-update-engine-abc-wsi

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• Adding patch_mode argument to the engine_abc.get_dataloader() method

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Commits on Dec 15, 2023

• Reducing complexity in EngineABC as per review comments

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Commits on Dec 18, 2023

• Merge branch 'dev-define-engines-abc' into dev-update-engine-abc-wsi

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Commits on Dec 31, 2023

• Replacing tolist() with Zarr groups

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• Merge branch 'dev-update-engine-abc-wsi' of https://github.com/TissueImageAnalytics/tiatoolbox into dev-update-engine-abc-wsi

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Commits on Jan 12, 2024

• 🧪 Remove failing test temporarily.

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Commits on Jan 19, 2024

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• 🔨 Use model.to

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Commits on Mar 15, 2024

• ✅ Add tests for eng.run() in WSI mode.

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