de.unihalle.informatik.MiToBo.segmentation.evaluation.measures

Class EvaluationMeasure

java.lang.Object

de.unihalle.informatik.Alida.operator.ALDOperator

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

de.unihalle.informatik.MiToBo.segmentation.evaluation.measures.EvaluationMeasure

All Implemented Interfaces:

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

Direct Known Subclasses:

EvaluationMeasureContours, Measure_RecallPrecisionF

public abstract class EvaluationMeasure
extends MTBOperator

Base class for evaluation measures comparing a segmentation result against a groundtruth segmentation.

Author:

Birgit Moeller

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
protected MTBGroundtruthEvaluationData	evalData Result data.
protected int[]	gtIDs Match list of set entries to original groundtruth labels.
protected MTBImageShort	gtLabelImage Groundtruth labeling.
protected int	height Height of label images.
protected TreeSet<Integer>	labelsetGT Set of available groundtruth labels.
protected TreeSet<Integer>	labelsetSG Set of available segmentation labels.
protected byte[][]	matchingMatrix Matching matrix.
protected int	maxRegionCount Maximum number of regions in groundtruth or segmented region set.
protected int	minRegionCount Minimum number of regions in groundtruth or segmented region set.
protected double[][]	scoreMatrix Score matrix with pairwise overlaps.
protected MTBImageShort	segLabelImage Label image of segmentation result.
protected int[]	sgIDs Match list of set entries to original segmentation labels.
protected HashMap<Integer,Integer>	sizesGT Array of sizes of groundtruth regions.
protected HashMap<Integer,Integer>	sizesSG Array of sizes of segmented regions.
protected int	width Width of label images.

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

completeDAG, name, operatorExecutionEventlistenerList, portHashAccess, verbose, versionProvider

Constructor Summary

Constructors

Constructor and Description
EvaluationMeasure() Default constructor.
EvaluationMeasure(MTBImageShort sLabels, MTBImageShort gLabels) Constructor.

Method Summary

Modifier and Type	Method and Description
protected abstract void	doEvaluation() Method to overwrite that does actual calculations.
MTBGroundtruthEvaluationData	getResult() Returns evaluation result data.
protected void	operate()

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

segLabelImage

@Parameter(label="Segmentation label image",
           required=true,
           direction=IN,
           dataIOOrder=1,
           description="Segmentation result label image.")
protected transient MTBImageShort segLabelImage

Label image of segmentation result.

gtLabelImage

@Parameter(label="Groundtruth label image",
           required=true,
           direction=IN,
           dataIOOrder=2,
           description="Groundtruth label image.")
protected transient MTBImageShort gtLabelImage

Groundtruth labeling.

labelsetGT

protected TreeSet<Integer> labelsetGT

Set of available groundtruth labels.

labelsetSG

protected TreeSet<Integer> labelsetSG

Set of available segmentation labels.

gtIDs

protected int[] gtIDs

Match list of set entries to original groundtruth labels.

sgIDs

protected int[] sgIDs

Match list of set entries to original segmentation labels.

sizesGT

protected HashMap<Integer,Integer> sizesGT

Array of sizes of groundtruth regions.

sizesSG

protected HashMap<Integer,Integer> sizesSG

Array of sizes of segmented regions.

minRegionCount

protected int minRegionCount

Minimum number of regions in groundtruth or segmented region set.

maxRegionCount

protected int maxRegionCount

Maximum number of regions in groundtruth or segmented region set.

scoreMatrix

protected double[][] scoreMatrix

Score matrix with pairwise overlaps.

matchingMatrix

protected byte[][] matchingMatrix

Matching matrix.

width

protected int width

Width of label images.

height

protected int height

Height of label images.

evalData

@Parameter(label="Evaluation data",
           required=true,
           direction=OUT,
           description="Evaluation data.")
protected MTBGroundtruthEvaluationData evalData

Result data.

Constructor Detail

EvaluationMeasure

public EvaluationMeasure(MTBImageShort sLabels,
                         MTBImageShort gLabels)
                  throws de.unihalle.informatik.Alida.exceptions.ALDOperatorException

Constructor.

Parameters:

sLabels - Image with segmentation labels.

gLabels - Image with groundtruth labels.

Throws:

de.unihalle.informatik.Alida.exceptions.ALDOperatorException - Thrown in case of failure.

EvaluationMeasure

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

Default constructor.

Throws:

de.unihalle.informatik.Alida.exceptions.ALDOperatorException - Thrown in case of failure.

Method Detail

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

doEvaluation

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

Method to overwrite that does actual calculations.

Throws:

de.unihalle.informatik.Alida.exceptions.ALDOperatorException - Thrown in case of failure.

de.unihalle.informatik.Alida.exceptions.ALDProcessingDAGException - Thrown in case of failure.

getResult

public MTBGroundtruthEvaluationData getResult()

Returns evaluation result data.

Returns:

Result data object.