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Created with Raphaël 2.2.011Apr109543229Mar2825222176429Feb282019157653226Jan259822Dec21201914Nov1310763231Oct30272625222019181716141312111098529Sep2827262513127654131Aug302928242322Method to export derived channels as patch stacksTesting access to derived channels for .accs_derivedAdded doc string to explain callables for derived channelsCleaned up print statements in testPass function handles to add derived classes to object classificationPatchStack clones as PatchStack, others as InMemoryImageAccessorPatchStack clones as PatchStack, others as InMemoryImageAccessorCreate new accessor for given channelsConvenience methods for multiple channel slices in accessorsRoiSet can passes multiple input channels to object classifierAdded accessor method to get multiple channelsAdded option to automatically rotate patches in a nonuniform list such that height is always greater than or equal to width; this is a big data reduction for collections of elongated patchesHandle sporadic ilastik error when patches are close in size to largest filtersCall pixel classification to pixel probability map on patch stacks's cropped dataCall pixel classification to boolean mask on patch stacks's cropsPatchStack remembers crop boundaries of individual patches if created from list of non-matching patchesUse OrderedDict for timer eventslabel_patch_stack() only calls classifier inference onceImplemented checks for multiple labels in .label_patch_stack() methodMerge branch 'dev_multichannel_classifiers' into 'staging'Check input against model dimensionality and chroma in all ilastik casesReformatted data embedding assertion, track axis tags in model objectAllow multichannel raw and single-channel mask to pass assertionMerge branch 'issue0029' into 'staging'Corrected error with overlapping bounding boxes, whereby a second box would overwrite a first; instead, masks are now just additive; also catch case when trying to draw contours from a mask that is a single pixel acrossMerge branch 'make_mono_channel_zero' into 'staging'Fixed bug where exporting patch at channel zero was confused with white_channel being unspecifiedMerge branch 'allow_mono_patches' into 'staging'Allow None as an argument to rgb_overlay_channels, indicating export of mono patchesMerge branch 'issue0028' into 'staging'3d patch defers to params on whether to expand or notSimply added expanded attribute to pydantic modelCaught issue in a testMerge branch 'use_relative_patch_paths' into 'staging'Serialize after running other exports, as patch path is embedded in dataframe; write this with subdirectoryMerge branch 'use_relative_patch_paths' into 'staging'Changed name of path mask path columnMerge branch 'use_relative_patch_paths' into 'staging'Harmonize relative paths with exported dataframe, toorun_exports returns only relative paths to all products