org.hkijena.jipipe.plugins.ijfilaments.nodes.process

Class FixOverlapsNonBranchingAlgorithm

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.ijfilaments.nodes.process.FixOverlapsNonBranchingAlgorithm

All Implemented Interfaces:

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

public class FixOverlapsNonBranchingAlgorithm
extends JIPipeIteratingAlgorithm

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	FixOverlapsNonBranchingAlgorithm.EdgeCandidate

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
FixOverlapsNonBranchingAlgorithm(FixOverlapsNonBranchingAlgorithm other)
FixOverlapsNonBranchingAlgorithm(JIPipeNodeInfo info)

Method Summary

Modifier and Type	Method and Description
JIPipeExpressionParameter	getFilterFunction()
OptionalColorParameter	getNewEdgeColor()
JIPipeExpressionParameter	getScoringFunction()
boolean	isConnectAcrossC()
boolean	isConnectAcrossT()
boolean	isEnable3D()
boolean	isEnforceEdgesWithinMask()
boolean	isEnforceSameComponent()
boolean	isEnsureNoPathExists()
boolean	isExcludeExistingEndpoints()
protected void	runIteration(JIPipeSingleIterationStep iterationStep, JIPipeIterationContext iterationContext, JIPipeGraphNodeRunContext runContext, JIPipeProgressInfo progressInfo) Runs code on one data row
void	setConnectAcrossC(boolean connectAcrossC)
void	setConnectAcrossT(boolean connectAcrossT)
void	setEnable3D(boolean enable3D)
void	setEnforceEdgesWithinMask(boolean enforceEdgesWithinMask)
void	setEnforceSameComponent(boolean enforceSameComponent)
void	setEnsureNoPathExists(boolean ensureNoPathExists)
void	setExcludeExistingEndpoints(boolean excludeExistingEndpoints)
void	setFilterFunction(JIPipeExpressionParameter filterFunction)
void	setNewEdgeColor(OptionalColorParameter newEdgeColor)
void	setScoringFunction(JIPipeExpressionParameter scoringFunction)

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

FixOverlapsNonBranchingAlgorithm

public FixOverlapsNonBranchingAlgorithm(JIPipeNodeInfo info)

FixOverlapsNonBranchingAlgorithm

public FixOverlapsNonBranchingAlgorithm(FixOverlapsNonBranchingAlgorithm other)

Method Detail

isEnforceEdgesWithinMask

public boolean isEnforceEdgesWithinMask()

setEnforceEdgesWithinMask

public void setEnforceEdgesWithinMask(boolean enforceEdgesWithinMask)

getNewEdgeColor

public OptionalColorParameter getNewEdgeColor()

setNewEdgeColor

public void setNewEdgeColor(OptionalColorParameter newEdgeColor)

getFilterFunction

public JIPipeExpressionParameter getFilterFunction()

setFilterFunction

public void setFilterFunction(JIPipeExpressionParameter filterFunction)

getScoringFunction

public JIPipeExpressionParameter getScoringFunction()

setScoringFunction

public void setScoringFunction(JIPipeExpressionParameter scoringFunction)

isExcludeExistingEndpoints

public boolean isExcludeExistingEndpoints()

setExcludeExistingEndpoints

public void setExcludeExistingEndpoints(boolean excludeExistingEndpoints)

isEnforceSameComponent

public boolean isEnforceSameComponent()

setEnforceSameComponent

public void setEnforceSameComponent(boolean enforceSameComponent)

isEnsureNoPathExists

public boolean isEnsureNoPathExists()

setEnsureNoPathExists

public void setEnsureNoPathExists(boolean ensureNoPathExists)

isConnectAcrossC

public boolean isConnectAcrossC()

setConnectAcrossC

public void setConnectAcrossC(boolean connectAcrossC)

isConnectAcrossT

public boolean isConnectAcrossT()

setConnectAcrossT

public void setConnectAcrossT(boolean connectAcrossT)

isEnable3D

public boolean isEnable3D()

setEnable3D

public void setEnable3D(boolean enable3D)

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