org.hkijena.jipipe.plugins.imagejalgorithms.nodes.threshold.iterative

Class IterativeThresholdByROIStatistics2DAlgorithm

java.lang.Object

org.hkijena.jipipe.api.parameters.AbstractJIPipeParameterCollection

org.hkijena.jipipe.api.nodes.JIPipeGraphNode

org.hkijena.jipipe.api.nodes.JIPipeAlgorithm

org.hkijena.jipipe.api.nodes.algorithm.JIPipeParameterSlotAlgorithm

org.hkijena.jipipe.api.nodes.algorithm.JIPipeIteratingAlgorithm

org.hkijena.jipipe.plugins.imagejalgorithms.nodes.threshold.iterative.IterativeThresholdByROIStatistics2DAlgorithm

All Implemented Interfaces:

JIPipeSlotConfiguration.SlotConfigurationChangedEventListener, JIPipeFunctionallyComparable, JIPipeIterationStepAlgorithm, JIPipeAdaptiveParametersAlgorithm, JIPipeParallelizedAlgorithm, JIPipeParameterCollection, JIPipeParameterCollection.ParameterChangedEventListener, JIPipeParameterCollection.ParameterStructureChangedEventListener, JIPipeParameterCollection.ParameterUIChangedEventListener, JIPipeValidatable

public class IterativeThresholdByROIStatistics2DAlgorithm
extends JIPipeIteratingAlgorithm

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	IterativeThresholdByROIStatistics2DAlgorithm.FilteringParameters
static class	IterativeThresholdByROIStatistics2DAlgorithm.ScoreParameters
static class	IterativeThresholdByROIStatistics2DAlgorithm.ThresholdingResult

Nested classes/interfaces inherited from class org.hkijena.jipipe.api.nodes.JIPipeGraphNode

JIPipeGraphNode.BaseDirectoryChangedEvent, JIPipeGraphNode.BaseDirectoryChangedEventEmitter, JIPipeGraphNode.BaseDirectoryChangedEventListener, JIPipeGraphNode.NodeSlotsChangedEvent, JIPipeGraphNode.NodeSlotsChangedEventEmitter, JIPipeGraphNode.NodeSlotsChangedEventListener, JIPipeGraphNode.Serializer

Nested classes/interfaces inherited from interface org.hkijena.jipipe.api.parameters.JIPipeParameterCollection

JIPipeParameterCollection.ParameterChangedEvent, JIPipeParameterCollection.ParameterChangedEventEmitter, JIPipeParameterCollection.ParameterChangedEventListener, JIPipeParameterCollection.ParameterStructureChangedEvent, JIPipeParameterCollection.ParameterStructureChangedEventEmitter, JIPipeParameterCollection.ParameterStructureChangedEventListener, JIPipeParameterCollection.ParameterUIChangedEvent, JIPipeParameterCollection.ParameterUIChangedEventEmitter, JIPipeParameterCollection.ParameterUIChangedEventListener

Field Summary

Fields inherited from class org.hkijena.jipipe.api.nodes.algorithm.JIPipeParameterSlotAlgorithm

SLOT_PARAMETERS

Constructor Summary

Constructors

Constructor and Description
IterativeThresholdByROIStatistics2DAlgorithm(IterativeThresholdByROIStatistics2DAlgorithm other)
IterativeThresholdByROIStatistics2DAlgorithm(JIPipeNodeInfo info)

Method Summary

Modifier and Type	Method and Description
IterativeThresholdByROIStatistics2DAlgorithm.FilteringParameters	getFilteringParameters()
ImageStatisticsSetParameter	getMeasurements()
IterativeThresholdByROIStatistics2DAlgorithm.ScoreParameters	getScoreParameters()
OptionalTextAnnotationNameParameter	getThresholdAnnotation()
JIPipeTextAnnotationMergeMode	getThresholdAnnotationStrategy()
JIPipeExpressionParameter	getThresholdCombinationExpression()
IntegerRange	getThresholds()
boolean	isExcludeEdgeROIs()
boolean	isMeasureInPhysicalUnits()
void	run(JIPipeGraphNodeRunContext runContext, JIPipeProgressInfo progressInfo) Runs the workload
protected void	runIteration(JIPipeSingleIterationStep iterationStep, JIPipeIterationContext iterationContext, JIPipeGraphNodeRunContext runContext, JIPipeProgressInfo progressInfo) Runs code on one data row
void	setExcludeEdgeROIs(boolean excludeEdgeROIs)
void	setMeasureInPhysicalUnits(boolean measureInPhysicalUnits)
void	setMeasurements(ImageStatisticsSetParameter measurements)
void	setThresholdAnnotation(OptionalTextAnnotationNameParameter thresholdAnnotation)
void	setThresholdAnnotationStrategy(JIPipeTextAnnotationMergeMode thresholdAnnotationStrategy)
void	setThresholdCombinationExpression(JIPipeExpressionParameter thresholdCombinationExpression)
void	setThresholds(IntegerRange thresholds)

Methods inherited from class org.hkijena.jipipe.api.nodes.algorithm.JIPipeIteratingAlgorithm

createUIInputSlotIconDescriptionMenuItems, generateDataBatchesGenerationResult, getAdaptiveParameterSettings, getDataBatchGenerationSettings, getGenerationSettingsInterface, getParallelizationBatchSize, isAllowEmptyIterationStep, isParameterUIVisible, isParameterUIVisible, runParameterSet, runPassThrough, supportsParallelization

Methods inherited from class org.hkijena.jipipe.api.nodes.algorithm.JIPipeParameterSlotAlgorithm

getDataInputSlotCount, getDataInputSlots, getFirstInputSlot, getNonParameterInputSlots, getParameterSlot, getParameterSlotAlgorithmSettings, getUIInputSlotIcon, getUIInputSlotIconBaseDimensions, onParameterChanged

Methods inherited from class org.hkijena.jipipe.api.nodes.JIPipeAlgorithm

canAutoPassThrough, canPassThrough, functionallyEquals, getDefaultCustomExpressionVariables, getRuntimePartition, isEnabled, isEnableDefaultCustomExpressionVariables, isPassThrough, isPostprocessor, isPreprocessor, isSkipped, loadExample, onDeserialized, reportValidity, runPassThrough, setEnabled, setPassThrough, setRuntimePartition, setSkipped

Methods inherited from class org.hkijena.jipipe.api.nodes.JIPipeGraphNode

archiveTo, canUserDelete, clearLocations, clearSlotData, copySlotConfiguration, duplicate, emitNodeSlotsChangedEvent, fromJson, getAliasIdInParentGraph, getBaseDirectory, getBaseDirectoryChangedEventEmitter, getCategory, getCompartmentDisplayName, getCompartmentUUIDInGraphAsString, getCompartmentUUIDInParentGraph, getCustomDescription, getCustomName, getDependencies, getDisplayName, getEnvironmentDependencies, getFirstOutputSlot, getInfo, getInputSlot, getInputSlotMap, getInputSlotOrder, getInputSlots, getInputSlotsWithRole, getInternalStoragePath, getLastInputSlot, getLastOutputSlot, getName, getNewScratch, getNodeSlotsChangedEventEmitter, getNodeUILocationPerViewModePerCompartment, getNodeUILocationWithin, getOpenInputSlots, getOutputSlot, getOutputSlotMap, getOutputSlots, getOutputSlotsWithRole, getParentGraph, getProject, getProjectCompartment, getProjectDataDirs, getProjectDirectory, getRuntimeProject, getScratchBaseDirectory, getSlotConfiguration, getStoragePath, getTextDescription, getUUIDInParentGraph, hasInputSlot, hasOutputSlot, isBookmarked, isUiLocked, isVisibleIn, onSlotConfigurationChanged, renderInputSlots, renderOutputSlots, setBaseDirectory, setBookmarked, setCustomDescription, setCustomName, setInfo, setInternalStoragePath, setNodeUILocationPerViewModePerCompartment, setNodeUILocationWithin, setNodeUILocationWithin, setParentGraph, setProjectDirectory, setRuntimeProject, setScratchBaseDirectory, setSlotConfiguration, setStoragePath, setUiLocked, toggleSlot, toJson, updateGraphNodeSlots

Methods inherited from class org.hkijena.jipipe.api.parameters.AbstractJIPipeParameterCollection

getParameterChangedEventEmitter, getParameterStructureChangedEventEmitter, getParameterUIChangedEventEmitter, onParameterStructureChanged, onParameterUIChanged, registerSubParameter, registerSubParameters

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Methods inherited from interface org.hkijena.jipipe.api.nodes.iterationstep.JIPipeIterationStepAlgorithm

generateDataBatchesDryRun

Methods inherited from interface org.hkijena.jipipe.api.nodes.JIPipeAdaptiveParametersAlgorithm

installUIOverrideParameterEditor, installUIParameterOptions

Methods inherited from interface org.hkijena.jipipe.api.parameters.JIPipeParameterCollection

deserializeFromJsonNode, emitParameterChangedEvent, emitParameterStructureChangedEvent, emitParameterUIChangedEvent, getContextActions, getParameter, getParameterAccess, getParameterChangedEventEmitter, getParameterStructureChangedEventEmitter, getParameterUIChangedEventEmitter, serializeToJsonFile, serializeToJsonGenerator, serializeToJsonString, setParameter

Methods inherited from interface org.hkijena.jipipe.api.validation.JIPipeValidatable

generateValidityReport

Methods inherited from interface org.hkijena.jipipe.api.parameters.JIPipeParameterCollection.ParameterUIChangedEventListener

onParameterUIChanged

Methods inherited from interface org.hkijena.jipipe.api.parameters.JIPipeParameterCollection.ParameterStructureChangedEventListener

onParameterStructureChanged

Constructor Detail

IterativeThresholdByROIStatistics2DAlgorithm

public IterativeThresholdByROIStatistics2DAlgorithm(JIPipeNodeInfo info)

IterativeThresholdByROIStatistics2DAlgorithm

public IterativeThresholdByROIStatistics2DAlgorithm(IterativeThresholdByROIStatistics2DAlgorithm other)

Method Detail

run

public void run(JIPipeGraphNodeRunContext runContext,
                JIPipeProgressInfo progressInfo)

Description copied from class: JIPipeGraphNode

Runs the workload

Overrides:

run in class JIPipeParameterSlotAlgorithm

Parameters:

runContext - the context of the run process

progressInfo - progress passed from the runner

runIteration

protected void runIteration(JIPipeSingleIterationStep iterationStep,
                            JIPipeIterationContext iterationContext,
                            JIPipeGraphNodeRunContext runContext,
                            JIPipeProgressInfo progressInfo)

Description copied from class: JIPipeIteratingAlgorithm

Runs code on one data row

Specified by:

runIteration in class JIPipeIteratingAlgorithm

Parameters:

iterationStep - The data interface

iterationContext - The iteration context

runContext - the run context

progressInfo - the progress info from the run

getMeasurements

public ImageStatisticsSetParameter getMeasurements()

setMeasurements

public void setMeasurements(ImageStatisticsSetParameter measurements)

getThresholds

public IntegerRange getThresholds()

setThresholds

public void setThresholds(IntegerRange thresholds)

isMeasureInPhysicalUnits

public boolean isMeasureInPhysicalUnits()

setMeasureInPhysicalUnits

public void setMeasureInPhysicalUnits(boolean measureInPhysicalUnits)

getThresholdAnnotationStrategy

public JIPipeTextAnnotationMergeMode getThresholdAnnotationStrategy()

setThresholdAnnotationStrategy

public void setThresholdAnnotationStrategy(JIPipeTextAnnotationMergeMode thresholdAnnotationStrategy)

getThresholdCombinationExpression

public JIPipeExpressionParameter getThresholdCombinationExpression()

setThresholdCombinationExpression

public void setThresholdCombinationExpression(JIPipeExpressionParameter thresholdCombinationExpression)

getThresholdAnnotation

public OptionalTextAnnotationNameParameter getThresholdAnnotation()

setThresholdAnnotation

public void setThresholdAnnotation(OptionalTextAnnotationNameParameter thresholdAnnotation)

isExcludeEdgeROIs

public boolean isExcludeEdgeROIs()

setExcludeEdgeROIs

public void setExcludeEdgeROIs(boolean excludeEdgeROIs)

getFilteringParameters

public IterativeThresholdByROIStatistics2DAlgorithm.FilteringParameters getFilteringParameters()

getScoreParameters

public IterativeThresholdByROIStatistics2DAlgorithm.ScoreParameters getScoreParameters()