Deprecated API

Contents

• Deprecated Classes
• Deprecated Enums
• Deprecated Methods
• Deprecated Constructors
• Deprecated Enum Constants
• Deprecated Annotation Type Elements

Deprecated Classes

Class and Description
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.roi.generate.AppendRectangularRoiAlgorithm
org.hkijena.jipipe.plugins.tables.nodes.rows.ApplyExpressionPerRowAlgorithm
org.hkijena.jipipe.plugins.tables.nodes.columns.ApplyExpressionToColumnsAlgorithm
org.hkijena.jipipe.plugins.imagejdatatypes.algorithms.io.BioFormatsExporterAlgorithm
org.hkijena.jipipe.plugins.cellpose.legacy.algorithms.Cellpose1InferenceAlgorithm New implementation will be CellposeAlgorithm2 that is based around the Cellpose CLI
org.hkijena.jipipe.plugins.cellpose.legacy.algorithms.Cellpose1TrainingAlgorithm
org.hkijena.jipipe.plugins.cellpose.legacy.parameters.CellposeSegmentationEnhancementSettings_Old
org.hkijena.jipipe.plugins.cellpose.legacy.parameters.CellposeSegmentationModelSettings_Old
org.hkijena.jipipe.plugins.cellpose.legacy.parameters.CellposeSegmentationOutputSettings_Old Used by the old Cellpose1InferenceAlgorithm
org.hkijena.jipipe.plugins.cellpose.legacy.parameters.CellposeSegmentationPerformanceSettings_Old
org.hkijena.jipipe.plugins.cellpose.legacy.parameters.CellposeSegmentationThresholdSettings_Old
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.roi.generate.DefineRectangularRoiAlgorithm
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.roi.draw.DrawOvalRoiAlgorithm
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.roi.draw.DrawRectangleRoiAlgorithm
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.io.ExportImageAlgorithm
org.hkijena.jipipe.plugins.ij3d.nodes.roi3d.ExportROI3DAlgorithm
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.io.ExportROIAlgorithm
org.hkijena.jipipe.plugins.scene3d.nodes.ExportScene3DToColladaAlgorithm
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.io.ExportTableAlgorithm
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.io.ExportTableAsXLSXAlgorithm
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.generate.GenerateMissingTablesAlgorithm
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.math.Hessian2DAlgorithm
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.math.ImageComparer2DAlgorithm
org.hkijena.jipipe.plugins.cellpose.legacy.algorithms.ImportLegacyCellposeModelAlgorithm
org.hkijena.jipipe.plugins.cellpose.legacy.algorithms.ImportLegacyCellposeSizeModelAlgorithm
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.montage.InputImagesToMontage
org.hkijena.jipipe.JIPipeLauncher
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.math.LegacyApplyMath2DAlgorithm
org.hkijena.jipipe.plugins.cellpose.legacy.algorithms.LegacyCellpose2InferenceAlgorithm
org.hkijena.jipipe.plugins.cellpose.legacy.algorithms.LegacyCellpose2TrainingAlgorithm
org.hkijena.jipipe.plugins.cellpose.legacy.datatypes.LegacyCellposeModelData
org.hkijena.jipipe.plugins.cellpose.legacy.datatypes.LegacyCellposeSizeModelData
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.math.LegacyImageCalculator2DAlgorithm
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.math.LegacyImageCalculator2DMergingAlgorithm
org.hkijena.jipipe.plugins.omnipose.legacy.algorithms.LegacyOmnipose0InferenceAlgorithm
org.hkijena.jipipe.plugins.omnipose.legacy.algorithms.LegacyOmnipose0TrainingAlgorithm
org.hkijena.jipipe.api.looping.LoopEndNode
org.hkijena.jipipe.api.looping.LoopStartNode
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.color.OverlayImagesAlgorithm Use BlendImagesAlgorithm instead
org.hkijena.jipipe.plugins.plots.nodes.PlotTablesAlgorithm Instead, the new dynamically generated plotting should be utilized
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.roi.generate.ReferencedAppendRectangularRoiAlgorithm
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.roi.generate.ReferencedDefineRectangularRoiAlgorithm
org.hkijena.jipipe.plugins.tables.nodes.columns.RenameTableColumnsAlgorithm
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.roi.sort.SortAndExtractRoiByStatisticsAlgorithm
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.color.SplitChannelsAlgorithm
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.montage.StackToMontageAlgorithm
org.hkijena.jipipe.plugins.tables.nodes.transform.TableToHistogramAlgorithm
org.hkijena.jipipe.plugins.imagejalgorithms.nodes.transform.TileImage2DAlgorithm

Deprecated Enums

Enum and Description
org.hkijena.jipipe.plugins.omnipose.legacy.parameters.LegacyOmnipose0Model
org.hkijena.jipipe.plugins.omnipose.legacy.parameters.LegacyOmnipose0PretrainedModel
org.hkijena.jipipe.plugins.cellpose.legacy.PretrainedLegacyCellpose2InferenceModel
org.hkijena.jipipe.plugins.cellpose.legacy.PretrainedLegacyCellpose2TrainingModel

Deprecated Methods

Method and Description
org.hkijena.jipipe.api.data.JIPipeDataTable.addAnnotationToAllData(JIPipeTextAnnotation, boolean) use addTextAnnotationToAllData()
org.hkijena.jipipe.api.data.JIPipeDataTable.addData(JIPipeDataItemStore, List<JIPipeTextAnnotation>, JIPipeTextAnnotationMergeMode, JIPipeProgressInfo) use the overload with the context
org.hkijena.jipipe.api.data.JIPipeDataTable.addData(JIPipeDataItemStore, List<JIPipeTextAnnotation>, JIPipeTextAnnotationMergeMode, List<JIPipeDataAnnotation>, JIPipeDataAnnotationMergeMode, JIPipeProgressInfo) use the overload with the context
org.hkijena.jipipe.api.data.JIPipeDataTable.addData(JIPipeData, JIPipeProgressInfo) use the overload with the context
org.hkijena.jipipe.api.data.JIPipeDataTable.addData(JIPipeData, List<JIPipeTextAnnotation>, JIPipeTextAnnotationMergeMode, JIPipeProgressInfo) use the overload with the context
org.hkijena.jipipe.api.data.JIPipeDataTable.addData(JIPipeData, List<JIPipeTextAnnotation>, JIPipeTextAnnotationMergeMode, List<JIPipeDataAnnotation>, JIPipeDataAnnotationMergeMode, JIPipeProgressInfo) use the overload with the context
org.hkijena.jipipe.api.data.JIPipeDataTable.addData(JIPipeDataTable, JIPipeProgressInfo) use addDataFromSlot
org.hkijena.jipipe.api.data.JIPipeDataTable.addFromTable(JIPipeDataTable, JIPipeProgressInfo) use addDataFromTable instead
org.hkijena.jipipe.api.data.JIPipeDataSlotInfo.Deserializer.Builder.addInheritanceConversion(Class<? extends JIPipeData>, Class<? extends JIPipeData>)
org.hkijena.jipipe.api.data.JIPipeDataSlotInfo.Deserializer.Builder.addInheritanceConversion(JIPipeDataInfo, JIPipeDataInfo)
org.hkijena.jipipe.api.data.JIPipeDefaultMutableSlotConfiguration.Builder.addOutputSlot(String, String, Class<? extends JIPipeData>, String) Slot inheritance is non-functional
org.hkijena.jipipe.api.data.JIPipeDefaultMutableSlotConfiguration.addOutputSlot(String, String, Class<? extends JIPipeData>, String, boolean) Inherited slot is non-functional
org.hkijena.jipipe.api.data.JIPipeDefaultMutableSlotConfiguration.Builder.addOutputSlot(String, String, Class<? extends JIPipeData>, String, Map<Class<? extends JIPipeData>, Class<? extends JIPipeData>>) Slot inheritance is non-functional
org.hkijena.jipipe.api.data.JIPipeDefaultMutableSlotConfiguration.Builder.addOutputSlot(String, String, Class<? extends JIPipeData>, String, Map<Class<? extends JIPipeData>, Class<? extends JIPipeData>>, boolean) Slot inheritance is non-functional
org.hkijena.jipipe.plugins.tables.datatypes.ResultsTableData.addRowBuilder() Use addAndModifyRow() instead
org.hkijena.jipipe.plugins.imagejdatatypes.util.ImageJUtils.forEachIndexedZTSlice(ImagePlus, BiConsumer<Map<Integer, ImageProcessor>, ImageSliceIndex>, JIPipeProgressInfo)
org.hkijena.jipipe.api.nodes.iterationstep.JIPipeIterationStepAlgorithm.generateDataBatchesDryRun(List<JIPipeInputDataSlot>, JIPipeProgressInfo) use generateDataBatchesGenerationResult
org.hkijena.jipipe.api.data.JIPipeDataTable.getAnnotationColumns() use getTextAnnotationColumns()
org.hkijena.jipipe.api.data.JIPipeDataTable.getAnnotationMap(int) Use getTextAnnotationMap instead
org.hkijena.jipipe.JIPipeJavaPlugin.getLogo()
org.hkijena.jipipe.api.data.JIPipeDataTable.getVirtualData(int) use getDataItemStore
org.hkijena.jipipe.api.data.JIPipeDataTable.getVirtualDataAnnotation(int, String) use getDataAnnotationItemStore
org.hkijena.jipipe.api.data.JIPipeDataTable.getVirtualDataAnnotationMap(int) use getDataAnnotationItemStoreMap
org.hkijena.jipipe.api.nodes.DefaultAddJIPipeOutputSlot.inheritedSlot()
org.hkijena.jipipe.api.data.JIPipeData.preview(int, int)
org.hkijena.jipipe.api.data.JIPipeDataSlotInfo.Deserializer.Builder.resetInheritedSlot()
org.hkijena.jipipe.plugins.imageviewer.legacy.JIPipeDesktopLegacyImageViewer.setImage(ImagePlus)
org.hkijena.jipipe.api.data.JIPipeDataSlotInfo.Deserializer.Builder.setInheritanceConversions(Map<JIPipeDataInfo, JIPipeDataInfo>)
org.hkijena.jipipe.api.data.JIPipeDataSlotInfo.Deserializer.Builder.setInheritedSlot(String)
org.hkijena.jipipe.api.data.JIPipeDataTable.setVirtualData(int, JIPipeDataItemStore) use setDataItemStore
org.hkijena.jipipe.api.data.JIPipeDataTable.setVirtualDataAnnotation(int, String, JIPipeDataItemStore) use setDataAnnotationItemStore
org.hkijena.jipipe.desktop.app.grapheditor.commons.contextmenu.NodeUIContextAction.showInMultiSelectionPanel() the multi selection panel was removed

Deprecated Constructors

Constructor and Description
org.hkijena.jipipe.api.data.JIPipeDataSlotInfo(Class<? extends JIPipeData>, JIPipeSlotType, String, String, String) inheritedSlot is deprecated and non-functional
org.hkijena.jipipe.api.data.JIPipeDataSlotInfo(Class<? extends JIPipeData>, JIPipeSlotType, String, String, String, boolean) inheritedSlot is deprecated and non-functional

Deprecated Enum Constants

Enum Constant and Description
org.hkijena.jipipe.api.nodes.JIPipeGraphEdge.Visibility.AlwaysHiddenWithLabel not supported and will behave as AlwaysHidden
org.hkijena.jipipe.desktop.app.grapheditor.JIPipeGraphViewMode.Horizontal
org.hkijena.jipipe.api.nodes.JIPipeGraphEdge.Visibility.SmartSilent not supported and will behave the same as Smart (no label shown)
org.hkijena.jipipe.desktop.app.grapheditor.JIPipeGraphViewMode.Vertical

Deprecated Annotation Type Elements

Annotation Type Element and Description
org.hkijena.jipipe.api.environments.ExternalEnvironmentParameterSettings.allowEditButton has no effect
org.hkijena.jipipe.api.environments.ExternalEnvironmentParameterSettings.allowInstallButton has no effect
org.hkijena.jipipe.api.nodes.AddJIPipeOutputSlot.inheritedSlot non-functional as of JIPipe version 1.78.0
org.hkijena.jipipe.plugins.expressions.JIPipeExpressionParameterSettings.variableSource