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Update SegmentationExtractor#366

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pauladkisson wants to merge 32 commits into0.6.0catalystneuro/roiextractors:0.6.0from segmentationcatalystneuro/roiextractors:segmentationCopy head branch name to clipboard

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Commits on Sep 24, 2024

• renamed neuropil --> background

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Commits on Sep 25, 2024

• removed channels and num_planes

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• renamed imagingextractor_mixin to imaging_extractor_mixin

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• removed channels

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• renamed imagingextractor_mixin to imaging_extractor_mixin

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• fixed bug with all None roi_responses

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  9ed3179

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• corrected _image_masks typo

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Commits on Sep 26, 2024

• added initial tests and refactored segmentation extractor to use abstractmethods like imagingextractor does

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• removed write_segmentation

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• updated get_background_pixel_masks

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• removed properties from numpysegmentationextractor

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• reordered segmentation methods

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• split background response from roi responses

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• added some tests

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• added background_image_masks to numpyseg

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• finished simple tests (w/o parameterization)

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Commits on Sep 27, 2024

• fixed bug with num_background

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  9daf8b7

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• refactored numpysegmentationextractor

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• extracted different init modes into separate fns

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• updated docstring

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• extracted get_default_roi_locations_from_image_masks to extraction_tools

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• extracted get_roi_indices to base segmentation clas

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  8d8733c

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• reordered methods to match base

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• added tests for get_roi_indices

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• added parameterization for test

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• added parameterization for test

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  b3d9352

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• flattened parameterization

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  bf8b546

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• fixed typo

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  b031781

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• added tests fromFile

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• added TODO

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Commits on Sep 28, 2024

• added frame_slice

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Commits on Sep 30, 2024

• get_args for compound types

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