org.hkijena.jipipe.extensions.imagejalgorithms.ij1.threshold.local

Class LocalAutoThreshold2DAlgorithm

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.JIPipeSimpleIteratingAlgorithm

org.hkijena.jipipe.extensions.imagejalgorithms.ij1.threshold.local.LocalAutoThreshold2DAlgorithm

All Implemented Interfaces:

JIPipeValidatable, JIPipeAdaptiveParametersAlgorithm, JIPipeDataBatchAlgorithm, JIPipeParallelizedAlgorithm, JIPipeParameterCollection

public class LocalAutoThreshold2DAlgorithm
extends JIPipeSimpleIteratingAlgorithm

Segmenter node that thresholds via an auto threshold Based on code from Auto_Local_Threshold

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	LocalAutoThreshold2DAlgorithm.Method

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
LocalAutoThreshold2DAlgorithm(JIPipeNodeInfo info)
LocalAutoThreshold2DAlgorithm(LocalAutoThreshold2DAlgorithm other) Copies the algorithm

Method Summary

Modifier and Type	Method and Description
static ij.ImagePlus	duplicateImage(ij.process.ImageProcessor iProcessor)
LocalAutoThreshold2DAlgorithm.Method	getMethod()
int	getModifier()
int	getRadius()
boolean	isDarkBackground()
static void	Mean(ij.process.ImageProcessor ip, int radius, int c_value, boolean doIwhite)
static void	Median(ij.process.ImageProcessor ip, int radius, int c_value, boolean doIwhite)
static void	MidGrey(ij.process.ImageProcessor ip, int radius, int c_value, boolean doIwhite)
static void	Otsu(ij.process.ImageProcessor ip, int radius, int c_value, boolean doIwhite)
protected void	runIteration(JIPipeDataBatch dataBatch, JIPipeProgressInfo progressInfo) Runs code on one data row
void	setDarkBackground(boolean darkBackground)
void	setMethod(LocalAutoThreshold2DAlgorithm.Method method)
void	setModifier(int modifier)
boolean	setRadius(int radius)
boolean	supportsParallelization() Indicates to the algorithm base implementation if parallelization is supported.

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

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

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

LocalAutoThreshold2DAlgorithm

public LocalAutoThreshold2DAlgorithm(JIPipeNodeInfo info)

Parameters:

info - the info

LocalAutoThreshold2DAlgorithm

public LocalAutoThreshold2DAlgorithm(LocalAutoThreshold2DAlgorithm other)

Copies the algorithm

Parameters:

other - the original

Method Detail

Mean

public static void Mean(ij.process.ImageProcessor ip,
                        int radius,
                        int c_value,
                        boolean doIwhite)

Median

public static void Median(ij.process.ImageProcessor ip,
                          int radius,
                          int c_value,
                          boolean doIwhite)

MidGrey

public static void MidGrey(ij.process.ImageProcessor ip,
                           int radius,
                           int c_value,
                           boolean doIwhite)

Otsu

public static void Otsu(ij.process.ImageProcessor ip,
                        int radius,
                        int c_value,
                        boolean doIwhite)

duplicateImage

public static ij.ImagePlus duplicateImage(ij.process.ImageProcessor iProcessor)

supportsParallelization

public boolean supportsParallelization()

Description copied from interface: JIPipeParallelizedAlgorithm

Indicates to the algorithm base implementation if parallelization is supported. Use this function to indicate to the algorithm to conditionally enable/disable parallelization.

Specified by:

supportsParallelization in interface JIPipeParallelizedAlgorithm

Overrides:

supportsParallelization in class JIPipeSimpleIteratingAlgorithm

Returns:

If the algorithm supports automated parallelization.

runIteration

protected void runIteration(JIPipeDataBatch dataBatch,
                            JIPipeProgressInfo progressInfo)

Description copied from class: JIPipeSimpleIteratingAlgorithm

Runs code on one data row

Specified by:

runIteration in class JIPipeSimpleIteratingAlgorithm

Parameters:

dataBatch - The data interface

progressInfo - the progress info from the run

getMethod

public LocalAutoThreshold2DAlgorithm.Method getMethod()

setMethod

public void setMethod(LocalAutoThreshold2DAlgorithm.Method method)

isDarkBackground

public boolean isDarkBackground()

setDarkBackground

public void setDarkBackground(boolean darkBackground)

getModifier

public int getModifier()

setModifier

public void setModifier(int modifier)

getRadius

public int getRadius()

setRadius

public boolean setRadius(int radius)