de.unihalle.informatik.MiToBo.apps.cellMorphology

Class PaCeQuant.SkeletonPostprocessor

java.lang.Object

de.unihalle.informatik.Alida.operator.ALDOperator

de.unihalle.informatik.MiToBo.core.operator.MTBOperator

de.unihalle.informatik.MiToBo.apps.cellMorphology.PaCeQuant.SkeletonPostprocessor

All Implemented Interfaces:

de.unihalle.informatik.Alida.datatypes.ALDConfigurationValidator, de.unihalle.informatik.Alida.operator.events.ALDOperatorExecutionProgressEventListener, EventListener

Enclosing class:

PaCeQuant

private class PaCeQuant.SkeletonPostprocessor
extends MTBOperator

Helper operator to post-process border skeletons.

This operator mainly removes spines from the border skeletons and eliminates regions including very long intrusions, i.e. spines which are longer than the given threshold or even branch.

Nested Class Summary

Nested classes/interfaces inherited from class de.unihalle.informatik.Alida.operator.ALDOperator

de.unihalle.informatik.Alida.operator.ALDOperator.HidingMode, de.unihalle.informatik.Alida.operator.ALDOperator.HistoryConstructionMode

Field Summary

Fields

Modifier and Type	Field and Description
private MTBImageByte	inputImg Input skeleton image to process.
private int	maxSpineLength Maximal allowed length of a branch to be accepted as spine.
private static String	opID Identifier string for this operator class.
private MTBImageByte	postprocessedImg Postprocessed skeleton image.

Fields inherited from class de.unihalle.informatik.Alida.operator.ALDOperator

completeDAG, name, operatorExecutionEventlistenerList, portHashAccess, verbose, versionProvider

Constructor Summary

Constructors

Constructor and Description
SkeletonPostprocessor() Default constructor.

Method Summary

Modifier and Type	Method and Description
MTBImageByte	getResultImage() Returns postprocessed skeleton image.
protected void	operate()
void	setInputImage(MTBImageByte img) Set input image to process.
void	setMaximalSpineLength(int maxLength) Set maximal length of spines.

Methods inherited from class de.unihalle.informatik.MiToBo.core.operator.MTBOperator

readResolve

Methods inherited from class de.unihalle.informatik.Alida.operator.ALDOperator

addOperatorExecutionProgressEventListener, addParameter, addParameter, addParameterUnconditioned, fieldContained, fireOperatorExecutionProgressEvent, getALDPortHashAccessKey, getConstructionMode, getDocumentation, getHidingMode, getInactiveParameterNames, getInInoutNames, getInInoutNames, getInNames, getInOutNames, getMissingRequiredInputs, getName, getNumParameters, getOutInoutNames, getOutNames, getParameter, getParameterDescriptor, getParameterDescriptorUnconditioned, getParameterNames, getParameterUnconditioned, getSupplementalNames, getVerbose, getVersion, handleOperatorExecutionProgressEvent, hasInOutParameters, hasParameter, isAnnotatedParameter, isConfigured, print, print, print, printInterface, printInterface, readHistory, reinitializeParameterDescriptors, removeOperatorExecutionProgressEventListener, removeParameter, runOp, runOp, runOp, setConstructionMode, setConstructionMode, setConstructionMode, setHidingMode, setName, setParameter, setParameterUnconditioned, setVerbose, toStringVerbose, unconfiguredItems, validate, validateCustom, validateGeneric, writeHistory, writeHistory, writeHistory

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

opID

private static final String opID

Identifier string for this operator class.

See Also:

Constant Field Values

inputImg

@Parameter(label="Input Image",
           required=true,
           direction=IN,
           description="Input image.",
           dataIOOrder=0)
private transient MTBImageByte inputImg

Input skeleton image to process.

The operator expects a binary image with the skeleton pixels having black color on a white background.

maxSpineLength

@Parameter(label="Maximal Length of Spines",
           required=true,
           direction=IN,
           description="Max. spine length.",
           dataIOOrder=1)
private int maxSpineLength

Maximal allowed length of a branch to be accepted as spine.

postprocessedImg

@Parameter(label="Postprocessed Image",
           dataIOOrder=0,
           direction=OUT,
           description="Postprocessed skeleton image.")
private transient MTBImageByte postprocessedImg

Postprocessed skeleton image.

Constructor Detail

SkeletonPostprocessor

public SkeletonPostprocessor()
                      throws de.unihalle.informatik.Alida.exceptions.ALDOperatorException

Default constructor.

Throws:

de.unihalle.informatik.Alida.exceptions.ALDOperatorException - Thrown on instantiation failures.

Method Detail

setInputImage

public void setInputImage(MTBImageByte img)

Set input image to process.

Expecting skeleton to be black on white background.

Parameters:

img - Input skeleton image.

setMaximalSpineLength

public void setMaximalSpineLength(int maxLength)

Set maximal length of spines.

Parameters:

maxLength - Maximal length of spines.

getResultImage

public MTBImageByte getResultImage()

Returns postprocessed skeleton image.

Returns:

Result image.

operate

protected void operate()
                throws de.unihalle.informatik.Alida.exceptions.ALDOperatorException,
                       de.unihalle.informatik.Alida.exceptions.ALDProcessingDAGException

Specified by:

operate in class de.unihalle.informatik.Alida.operator.ALDOperator

Throws:

de.unihalle.informatik.Alida.exceptions.ALDOperatorException

de.unihalle.informatik.Alida.exceptions.ALDProcessingDAGException