org.hkijena.jipipe.extensions.ijfilaments.nodes.process

Class FixOverlapsNonBranchingAlgorithm

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.ijfilaments.nodes.process.FixOverlapsNonBranchingAlgorithm

All Implemented Interfaces:

JIPipeFunctionallyComparable, JIPipeValidatable, JIPipeAdaptiveParametersAlgorithm, JIPipeDataBatchAlgorithm, JIPipeParallelizedAlgorithm, JIPipeParameterCollection

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.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
FixOverlapsNonBranchingAlgorithm(FixOverlapsNonBranchingAlgorithm other)
FixOverlapsNonBranchingAlgorithm(JIPipeNodeInfo info)

Method Summary

Modifier and Type	Method and Description
CustomExpressionVariablesParameter	getCustomExpressionVariables()
DefaultExpressionParameter	getFilterFunction()
OptionalColorParameter	getNewEdgeColor()
DefaultExpressionParameter	getScoringFunction()
boolean	isConnectAcrossC()
boolean	isConnectAcrossT()
boolean	isEnable3D()
boolean	isEnforceEdgesWithinMask()
boolean	isEnforceSameComponent()
boolean	isEnsureNoPathExists()
boolean	isExcludeExistingEndpoints()
protected void	runIteration(JIPipeDataBatch dataBatch, 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(DefaultExpressionParameter filterFunction)
void	setNewEdgeColor(OptionalColorParameter newEdgeColor)
void	setScoringFunction(DefaultExpressionParameter scoringFunction)

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

createUIInputSlotIconDescriptionMenuItems, 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, getUIInputSlotIcon, getUIInputSlotIconBaseDimensions, run

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

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

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

archiveTo, 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, registerSubParameter, renderInputSlots, renderOutputSlots, setBaseDirectory, setBookmarked, setCustomDescription, setCustomName, setInfo, setInternalStoragePath, setLocations, setLocationWithin, setLocationWithin, setParentGraph, setProjectDirectory, setScratchBaseDirectory, setSlotConfiguration, setStoragePath, toggleSlot, toJson, triggerSlotsChangedEvent, updateGraphNodeSlots

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, installUIOverrideParameterEditor, installUIParameterOptions, setParameter, triggerParameterChange, triggerParameterStructureChange, triggerParameterUIChange

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)

getCustomExpressionVariables

public CustomExpressionVariablesParameter getCustomExpressionVariables()

getFilterFunction

public DefaultExpressionParameter getFilterFunction()

setFilterFunction

public void setFilterFunction(DefaultExpressionParameter filterFunction)

getScoringFunction

public DefaultExpressionParameter getScoringFunction()

setScoringFunction

public void setScoringFunction(DefaultExpressionParameter 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(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