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Make SimpleITK dependency optional#497

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yoda-vid merged 19 commits intosupport_itk_elastixsanderslab/magellanmapper:support_itk_elastixfrom sitk_optionalsanderslab/magellanmapper:sitk_optionalCopy head branch name to clipboardMay 11, 2023

+561-369

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Commits on May 10, 2023

• Remove NumPy data type mapping for SimpleITK conversion

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• Make SimpleITK import optional for type hints

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• Adjust metadata shape for ITK when replacing NumPy array

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• Allow sequence input to pad_seq to be a tuple

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• Add function to replace sequence with another sequence

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• Replace SimpleITK array/image conversions with generic conversion call

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• Generalize transferring ITK metadata into world info function

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• Extend intensity image overlap measurement to ITK

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• Generalize measuring labels overlap for ITK images

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• Make SimpleITK optional in atlas_refiner

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• Support reading images in SimpleITK or ITK Image format

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• Show images by SimpleITK only if it is loaded

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• Write images with ITK or SimpleITK

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• Refactor remaining SimpleITK read image calls to use wrapper

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• Add type hint for ITK in config

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• Make SimpleITK installation optional

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• Docs for simpleitk install group

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• Make ITK dependencies optional

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Commits on May 11, 2023

• Release notes for making SimpleITK optional (#497)

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