org.hkijena.jipipe.plugins.ij3d.nodes.segmentation

Class IterativeThreshold3DAlgorithm

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.ij3d.nodes.segmentation.IterativeThreshold3DAlgorithm

All Implemented Interfaces:

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

public class IterativeThreshold3DAlgorithm
extends JIPipeIteratingAlgorithm

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	IterativeThreshold3DAlgorithm.CriteriaMethod
static class	IterativeThreshold3DAlgorithm.SegmentResultsMethod
static class	IterativeThreshold3DAlgorithm.ThresholdMethod

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
IterativeThreshold3DAlgorithm(IterativeThreshold3DAlgorithm other)
IterativeThreshold3DAlgorithm(JIPipeNodeInfo info)

Method Summary

Modifier and Type	Method and Description
IterativeThreshold3DAlgorithm.CriteriaMethod	getCriteriaMethod()
int	getMaxVolumePixels()
int	getMinContrastExp()
int	getMinThreshold()
int	getMinVolumePixels()
IterativeThreshold3DAlgorithm.SegmentResultsMethod	getSegmentResultsMethod()
IterativeThreshold3DAlgorithm.ThresholdMethod	getThresholdMethod()
int	getValueMethod()
boolean	isEnableFiltering()
boolean	isStartsAtMean()
protected void	runIteration(JIPipeSingleIterationStep iterationStep, JIPipeIterationContext iterationContext, JIPipeGraphNodeRunContext runContext, JIPipeProgressInfo progressInfo) Runs code on one data row
void	setCriteriaMethod(IterativeThreshold3DAlgorithm.CriteriaMethod criteriaMethod)
void	setEnableFiltering(boolean enableFiltering)
void	setMaxVolumePixels(int maxVolumePixels)
void	setMinContrastExp(int minContrastExp)
void	setMinThreshold(int minThreshold)
void	setMinVolumePixels(int minVolumePixels)
void	setSegmentResultsMethod(IterativeThreshold3DAlgorithm.SegmentResultsMethod segmentResultsMethod)
void	setStartsAtMean(boolean startsAtMean)
void	setThresholdMethod(IterativeThreshold3DAlgorithm.ThresholdMethod thresholdMethod)
void	setValueMethod(int valueMethod)

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

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

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

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

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

IterativeThreshold3DAlgorithm

public IterativeThreshold3DAlgorithm(JIPipeNodeInfo info)

IterativeThreshold3DAlgorithm

public IterativeThreshold3DAlgorithm(IterativeThreshold3DAlgorithm other)

Method Detail

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

getMinVolumePixels

public int getMinVolumePixels()

setMinVolumePixels

public void setMinVolumePixels(int minVolumePixels)

getMaxVolumePixels

public int getMaxVolumePixels()

setMaxVolumePixels

public void setMaxVolumePixels(int maxVolumePixels)

getMinThreshold

public int getMinThreshold()

setMinThreshold

public void setMinThreshold(int minThreshold)

getMinContrastExp

public int getMinContrastExp()

setMinContrastExp

public void setMinContrastExp(int minContrastExp)

getValueMethod

public int getValueMethod()

setValueMethod

public void setValueMethod(int valueMethod)

isStartsAtMean

public boolean isStartsAtMean()

setStartsAtMean

public void setStartsAtMean(boolean startsAtMean)

isEnableFiltering

public boolean isEnableFiltering()

setEnableFiltering

public void setEnableFiltering(boolean enableFiltering)

getCriteriaMethod

public IterativeThreshold3DAlgorithm.CriteriaMethod getCriteriaMethod()

setCriteriaMethod

public void setCriteriaMethod(IterativeThreshold3DAlgorithm.CriteriaMethod criteriaMethod)

getThresholdMethod

public IterativeThreshold3DAlgorithm.ThresholdMethod getThresholdMethod()

setThresholdMethod

public void setThresholdMethod(IterativeThreshold3DAlgorithm.ThresholdMethod thresholdMethod)

getSegmentResultsMethod

public IterativeThreshold3DAlgorithm.SegmentResultsMethod getSegmentResultsMethod()

setSegmentResultsMethod

public void setSegmentResultsMethod(IterativeThreshold3DAlgorithm.SegmentResultsMethod segmentResultsMethod)