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Created with Raphaël 2.2.022Dec21201913Nov10763231Oct30272625222019181716141312111098529Sep2827262513127654131Aug302928242322Ignore PyCharm filesIgnore build artifactsTests pass in this project structureMinimal docs for pip build to useExport DataFrame from workflowFilters propagate from parameters dictDummy object classification exports mapCan make patch stack from itselfConsolidated more parameters into pydantic modelsConsolidated more parameters into pydantic modelsRemoved direct pixel map access from workflow functionPropagate filename to export productsCombined all export products into a single call, which routes individual products' export methods and parametersPass params model straight to product exporters, so less code dedicated to matching parametersFixed bug where error was raised generating 3D patches where expanded 3D stack encountered min/max of rangeProducts export successfully from workflowIroning out issues with parameterized patch product exportTest covering unified zmask workflow passesTest covers instance segmentation base classImplemented but did not yet test adding object classification result to RoiSet dataframeAdapted base segmentation worklow and API endpoint for generic semantic segmentation model; made dummy model this type tooTest and example notebook that covers object classification from binary segmentationRetained object classification from pixel probabilitieUpdated ilastik tests to cover semantic and instance segmentation methodsAdded superclass for instance segmentation models and modified ilastik object classification to inherit from itAdded superclass for semantic segmentation models and modified ilastik pixel classification to inherit from itAdded superclass for semantic segmentation models and modified ilastik pixel classification to inherit from itRenamed ZMask to RoiSet, prototyped object classification methods that add classification result as a dataframe columnTrying to test with batch operation but currently these do not involve object classificationDelegated export of patch products to ZMaskObjectTable class; consolidated both batch runner and API-facing workflows into infer_object_map_from_zstack(); consolidated parameterization of export products into pydantic modelBatch script to generate coloring book-like line profiles from pixel classifierMerged in mask export methodAutomatically export boolean masks as 0-255 black/whiteAutomatically export boolean masks as 0-255 black/whiteAutomatically export boolean masks as 0-255 black/whiteWait for confirmation that server is online before opening browserWait for confirmation that server is online before opening browseronly return keepers in zmask dataframeBatch method for multi-chunk Ecotaxa TSVImplemented batch export chunking