de.unihalle.informatik.Alida.demo
Class ALDKmeansOp

java.lang.Object
  extended by de.unihalle.informatik.Alida.operator.ALDOperator
      extended by de.unihalle.informatik.Alida.demo.ALDKmeansOp
All Implemented Interfaces:
ALDConfigurationValidator

@ALDAOperator(genericExecutionMode=ALL,
              level=APPLICATION)
public class ALDKmeansOp
extends ALDOperator

Demo operator clustering experimental data using k-means.

Author:
posch

Nested Class Summary
 
Nested classes/interfaces inherited from class de.unihalle.informatik.Alida.operator.ALDOperator
ALDOperator.HidingMode
 
Field Summary
private  java.util.List<java.util.Set<java.lang.Integer>> clusters
          Clusters represented as a list of clusters, where each cluster is a set of experiment Ids, i.e. indices into to input experimental data.
private  ExperimentalData experiment
          Input data
private  java.lang.Integer numCluster
          Number of components to be used for the sub space to project into.
 
Fields inherited from class de.unihalle.informatik.Alida.operator.ALDOperator
completeDAG, name, portHashAccess, verbose, versionProvider
 
Constructor Summary
ALDKmeansOp()
          Default constructor.
ALDKmeansOp(ExperimentalData _experiment)
          Constructor.
 
Method Summary
 java.util.List<java.util.Set<java.lang.Integer>> getClusters()
          Get value of result.
 ExperimentalData getExperiment()
          Get value of experiment.
 java.lang.Integer getNumCluster()
           
protected  void operate()
          This method does the actual work and needs to be implemented by every subclass.
 void setExperiment(ExperimentalData value)
          Set value of data.
 void setNumCluster(java.lang.Integer numCluster)
           
 
Methods inherited from class de.unihalle.informatik.Alida.operator.ALDOperator
deserializeFromXmlFile, fieldContained, getALDPortHashAccessKey, getConstructionMode, getInInoutNames, getInInoutNames, getInNames, getInOutNames, getMissingRequiredInputs, getName, getNumParameters, getOutInoutNames, getOutNames, getParameter, getParameterDescriptor, getParameterNames, getSupplementalNames, getVerbose, getVersion, isConfigured, parametersToXmlObject, print, print, print, printInterface, printInterface, readHistory, readResolve, reinitializeParameterDescriptors, runOp, runOp, runOp, serializeToXmlFile, setConstructionMode, setName, setParameter, setParametersFromXml, setParametersFromXml, setVerbose, toStringVerbose, unconfiguredItems, validate, validateCustom, validateGeneric, writeHistory, writeHistory, writeHistory, writeParametersToXml
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Field Detail

clusters

@Parameter(label="Clusters",
           direction=OUT,
           description="Clusters")
private transient java.util.List<java.util.Set<java.lang.Integer>> clusters
Clusters represented as a list of clusters, where each cluster is a set of experiment Ids, i.e. indices into to input experimental data.


experiment

@Parameter(label="Experimental data",
           required=true,
           direction=IN,
           description="Experimental data to cluster")
private ExperimentalData experiment
Input data


numCluster

@Parameter(label="Number of cluster",
           direction=IN,
           description="Number of cluster to be computed")
private java.lang.Integer numCluster
Number of components to be used for the sub space to project into.

Constructor Detail

ALDKmeansOp

public ALDKmeansOp()
            throws ALDOperatorException
Default constructor.

Throws:
ALDOperatorException

ALDKmeansOp

public ALDKmeansOp(ExperimentalData _experiment)
            throws ALDOperatorException
Constructor.

Parameters:
experiment - Experimental data
Throws:
ALDOperatorException
Method Detail

getClusters

public java.util.List<java.util.Set<java.lang.Integer>> getClusters()
Get value of result. Explanation: Normalized experiment.

Returns:
value of result

getExperiment

public ExperimentalData getExperiment()
Get value of experiment. Explanation: Experimental data to be normalized.

Returns:
value of data

getNumCluster

public java.lang.Integer getNumCluster()
Returns:
the numCluster

operate

protected void operate()
                throws ALDOperatorException,
                       ALDProcessingDAGException
Description copied from class: ALDOperator
This method does the actual work and needs to be implemented by every subclass.

Specified by:
operate in class ALDOperator
Throws:
ALDOperatorException
ALDProcessingDAGException

setExperiment

public void setExperiment(ExperimentalData value)
Set value of data. Explanation: Experimental data to be normalized.

Parameters:
value - New value of data

setNumCluster

public void setNumCluster(java.lang.Integer numCluster)
Parameters:
numCluster - the numCluster to set