org.hkijena.jipipe.extensions.imagejalgorithms.ij1.roi

Class SplitRoiConnectedComponentsAlgorithm

java.lang.Object

org.hkijena.jipipe.api.nodes.JIPipeGraphNode

org.hkijena.jipipe.api.nodes.JIPipeAlgorithm

org.hkijena.jipipe.api.nodes.JIPipeParameterSlotAlgorithm

org.hkijena.jipipe.api.nodes.JIPipeIteratingAlgorithm

org.hkijena.jipipe.extensions.imagejalgorithms.ij1.roi.SplitRoiConnectedComponentsAlgorithm

All Implemented Interfaces:

JIPipeValidatable, JIPipeAdaptiveParametersAlgorithm, JIPipeDataBatchAlgorithm, JIPipeParallelizedAlgorithm, JIPipeParameterCollection

public class SplitRoiConnectedComponentsAlgorithm
extends JIPipeIteratingAlgorithm

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	SplitRoiConnectedComponentsAlgorithm.DimensionOperation
static class	SplitRoiConnectedComponentsAlgorithm.GraphPostprocessingVariables

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

JIPipeAlgorithm.StateSerializer

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

JIPipeGraphNode.BaseDirectoryChangedEvent, JIPipeGraphNode.Serializer

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

JIPipeParameterCollection.ParameterChangedEvent, JIPipeParameterCollection.ParameterStructureChangedEvent, JIPipeParameterCollection.ParameterUIChangedEvent

Field Summary

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

SLOT_PARAMETERS

Constructor Summary

Constructors

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

Method Summary

Modifier and Type	Method and Description
OptionalAnnotationNameParameter	getComponentNameAnnotation()
SplitRoiConnectedComponentsAlgorithm.DimensionOperation	getDimensionCOperation()
SplitRoiConnectedComponentsAlgorithm.DimensionOperation	getDimensionTOperation()
SplitRoiConnectedComponentsAlgorithm.DimensionOperation	getDimensionZOperation()
DefaultExpressionParameter	getGraphPostprocessing()
DefaultExpressionParameter	getOverlapFilter()
ImageStatisticsSetParameter	getOverlapFilterMeasurements()
boolean	isMeasureInPhysicalUnits()
boolean	isSplitAtJunctions()
boolean	isTrySolveJunctions()
void	reportValidity(JIPipeIssueReport report) Generates a validity report
protected void	runIteration(JIPipeDataBatch dataBatch, JIPipeProgressInfo progressInfo) Runs code on one data row
void	setComponentNameAnnotation(OptionalAnnotationNameParameter componentNameAnnotation)
void	setDimensionCOperation(SplitRoiConnectedComponentsAlgorithm.DimensionOperation dimensionCOperation)
void	setDimensionTOperation(SplitRoiConnectedComponentsAlgorithm.DimensionOperation dimensionTOperation)
void	setDimensionZOperation(SplitRoiConnectedComponentsAlgorithm.DimensionOperation dimensionZOperation)
void	setGraphPostprocessing(DefaultExpressionParameter graphPostprocessing)
void	setMeasureInPhysicalUnits(boolean measureInPhysicalUnits)
void	setOverlapFilter(DefaultExpressionParameter overlapFilter)
void	setOverlapFilterMeasurements(ImageStatisticsSetParameter overlapFilterMeasurements)
void	setSplitAtJunctions(boolean splitAtJunctions)
void	setTrySolveJunctions(boolean trySolveJunctions)

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

generateDataBatchesDryRun, getAdaptiveParameterSettings, getDataBatchGenerationSettings, getGenerationSettingsInterface, getParallelizationBatchSize, isParallelizationEnabled, isParameterUIVisible, isParameterUIVisible, runParameterSet, runPassThrough, setParallelizationEnabled, supportsParallelization

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

getDataInputSlotCount, getDataInputSlots, getFirstInputSlot, getNonParameterInputSlots, getParameterSlot, getParameterSlotAlgorithmSettings, run

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

canAutoPassThrough, canPassThrough, getStateId, getThreadPool, isEnabled, isPassThrough, isPostprocessor, isPreprocessor, loadExample, runPassThrough, setEnabled, setPassThrough, setThreadPool

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

canUserDelete, clearLocations, clearSlotData, copySlotConfiguration, duplicate, fromJson, fromJsonNode, getAliasIdInParentGraph, getBaseDirectory, getCategory, getCompartmentDisplayName, getCompartmentUUIDInGraphAsString, getCompartmentUUIDInParentGraph, getCustomDescription, getDependencies, getDisplayName, getEventBus, getFirstOutputSlot, getInfo, getInputSlot, getInputSlotMap, getInputSlotOrder, getInputSlots, getInputSlotsWithRole, getInternalStoragePath, getLastInputSlot, getLastOutputSlot, getLocations, getLocationWithin, getName, getNewScratch, getOpenInputSlots, getOutputSlot, getOutputSlotMap, getOutputSlots, getOutputSlotsWithRole, getParentGraph, getProjectCompartment, getProjectDirectory, getScratchBaseDirectory, getSlotConfiguration, getStoragePath, getUUIDInParentGraph, hasInputSlot, hasOutputSlot, isBookmarked, isVisibleIn, onDeserialized, onParameterChanged, onParameterStructureChanged, onParameterUIChanged, onSlotConfigurationChanged, onSlotConnected, onSlotDisconnected, registerSubParameter, renderInputSlots, renderOutputSlots, setAllSlotsVirtual, setBaseDirectory, setBookmarked, setCustomDescription, setCustomName, setInfo, setInternalStoragePath, setLocations, setLocationWithin, setLocationWithin, setParentGraph, setProjectDirectory, setScratchBaseDirectory, setSlotConfiguration, setStoragePath, toggleSlot, toJson, triggerSlotsChangedEvent, updateGraphNodeSlots, updateSlotInheritance

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.JIPipeValidatable

generateValidityReport

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

addParameterChangeListener, addParameterChangeListener, getContextActions, getParameter, getParameterAccess, setParameter, triggerParameterChange, triggerParameterStructureChange, triggerParameterUIChange

Constructor Detail

SplitRoiConnectedComponentsAlgorithm

public SplitRoiConnectedComponentsAlgorithm(JIPipeNodeInfo info)

SplitRoiConnectedComponentsAlgorithm

public SplitRoiConnectedComponentsAlgorithm(SplitRoiConnectedComponentsAlgorithm other)

Method Detail

runIteration

protected void runIteration(JIPipeDataBatch dataBatch,
                            JIPipeProgressInfo progressInfo)

Description copied from class: JIPipeIteratingAlgorithm

Runs code on one data row

Specified by:

runIteration in class JIPipeIteratingAlgorithm

Parameters:

dataBatch - The data interface

progressInfo - the progress info from the run

getGraphPostprocessing

public DefaultExpressionParameter getGraphPostprocessing()

setGraphPostprocessing

public void setGraphPostprocessing(DefaultExpressionParameter graphPostprocessing)

getDimensionZOperation

public SplitRoiConnectedComponentsAlgorithm.DimensionOperation getDimensionZOperation()

setDimensionZOperation

public void setDimensionZOperation(SplitRoiConnectedComponentsAlgorithm.DimensionOperation dimensionZOperation)

getDimensionCOperation

public SplitRoiConnectedComponentsAlgorithm.DimensionOperation getDimensionCOperation()

setDimensionCOperation

public void setDimensionCOperation(SplitRoiConnectedComponentsAlgorithm.DimensionOperation dimensionCOperation)

getDimensionTOperation

public SplitRoiConnectedComponentsAlgorithm.DimensionOperation getDimensionTOperation()

setDimensionTOperation

public void setDimensionTOperation(SplitRoiConnectedComponentsAlgorithm.DimensionOperation dimensionTOperation)

getComponentNameAnnotation

public OptionalAnnotationNameParameter getComponentNameAnnotation()

setComponentNameAnnotation

public void setComponentNameAnnotation(OptionalAnnotationNameParameter componentNameAnnotation)

reportValidity

public void reportValidity(JIPipeIssueReport report)

Description copied from interface: JIPipeValidatable

Generates a validity report

Specified by:

reportValidity in interface JIPipeValidatable

Overrides:

reportValidity in class JIPipeAlgorithm

Parameters:

report - the report to be added to

getOverlapFilter

public DefaultExpressionParameter getOverlapFilter()

setOverlapFilter

public void setOverlapFilter(DefaultExpressionParameter overlapFilter)

getOverlapFilterMeasurements

public ImageStatisticsSetParameter getOverlapFilterMeasurements()

setOverlapFilterMeasurements

public void setOverlapFilterMeasurements(ImageStatisticsSetParameter overlapFilterMeasurements)

isSplitAtJunctions

public boolean isSplitAtJunctions()

setSplitAtJunctions

public void setSplitAtJunctions(boolean splitAtJunctions)

isTrySolveJunctions

public boolean isTrySolveJunctions()

setTrySolveJunctions

public void setTrySolveJunctions(boolean trySolveJunctions)

isMeasureInPhysicalUnits

public boolean isMeasureInPhysicalUnits()

setMeasureInPhysicalUnits

public void setMeasureInPhysicalUnits(boolean measureInPhysicalUnits)