de.jstacs.classifier.assessment
Class ClassifierAssessmentAssessParameterSet

java.lang.Object
  de.jstacs.parameters.ParameterSet
      de.jstacs.classifier.assessment.ClassifierAssessmentAssessParameterSet

All Implemented Interfaces:

GalaxyConvertible, RangeIterator, Storable, Cloneable

Direct Known Subclasses:

KFoldCVAssessParameterSet, RepeatedHoldOutAssessParameterSet, RepeatedSubSamplingAssessParameterSet, Sampled_RepeatedHoldOutAssessParameterSet

public class ClassifierAssessmentAssessParameterSet
extends ParameterSet

This class is the superclass used by all ClassifierAssessmentAssessParameterSets. It is a container of user specified parameters that are necessary to define a run of an assess( ... )-method in a ClassifierAssessment instance.

It is recommended to extend this class for each subclass of ClassifierAssessment.

Author:

Andre Gohr (bioinf (nospam:.) ag (nospam:@) googlemail (nospam:.) com)

See Also:

ClassifierAssessment.assess(de.jstacs.classifier.MeasureParameters, ClassifierAssessmentAssessParameterSet, de.jstacs.data.Sample...), ClassifierAssessment.assess(de.jstacs.classifier.MeasureParameters, ClassifierAssessmentAssessParameterSet, de.jstacs.utils.ProgressUpdater, de.jstacs.data.Sample...), ClassifierAssessment.assess(de.jstacs.classifier.MeasureParameters, ClassifierAssessmentAssessParameterSet, de.jstacs.utils.ProgressUpdater, de.jstacs.data.Sample...)

Nested Class Summary

Nested classes/interfaces inherited from class de.jstacs.parameters.ParameterSet

ParameterSet.ParameterList

Field Summary

Fields inherited from class de.jstacs.parameters.ParameterSet

errorMessage, parameters, parent, ranged

Constructor Summary

ClassifierAssessmentAssessParameterSet()
Constructs a new ClassifierAssessmentAssessParameterSet with empty parameter values.

ClassifierAssessmentAssessParameterSet(int elementLength, boolean exceptionIfMPNotComputable)
Constructs a new ClassifierAssessmentAssessParameterSet with given parameter values.

ClassifierAssessmentAssessParameterSet(StringBuffer representation)
The standard constructor for the interface Storable.

Method Summary

Collection<Result>	getAnnotation() Returns a Collection of parameters containing informations about this ClassifierAssessmentAssessParameterSet.
int	getElementLength() Returns the length of elements (sequences) defined by this ClassifierAssessmentAssessParameterSet.
boolean	getExceptionIfMPNotComputable() Returns the flag defined by this ClassifierAssessmentAssessParameterSet.
protected void	initializeMyParametersArrayList() Initializes the list of Parameters in this ClassifierAssessmentAssessParameterSet.
protected void	loadParameters() Loads the parameters for this ParameterSet.

Methods inherited from class de.jstacs.parameters.ParameterSet

clone, fromGalaxy, fromXML, getErrorMessage, getId, getIndex, getNumberOfParameters, getNumberOfValues, getParameterAt, getParent, hasDefaultOrIsSet, initParameterList, initParameterList, isAtomic, isRanged, makeRanged, next, parametersLoaded, propagateId, recieveId, replaceParametersWithRangedInstance, reset, resetToFirst, setParent, simplify, toGalaxy, toXML, valuesToString

Methods inherited from class java.lang.Object

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

Constructor Detail

ClassifierAssessmentAssessParameterSet

public ClassifierAssessmentAssessParameterSet()
                                       throws UnsupportedOperationException

Constructs a new ClassifierAssessmentAssessParameterSet with empty parameter values.

Throws:

UnsupportedOperationException - if the ClassifierAssessmentAssessParameterSet could not be constructed or the parameters could not be loaded

See Also:

ParameterSet.ParameterSet()

ClassifierAssessmentAssessParameterSet

public ClassifierAssessmentAssessParameterSet(StringBuffer representation)
                                       throws NonParsableException

The standard constructor for the interface Storable. Constructs a ClassifierAssessmentAssessParameterSet out of its XML representation.

Parameters:

representation - the XML representation as StringBuffer

Throws:

NonParsableException - if the ClassifierAssessmentAssessParameterSet could not be reconstructed out of the XML representation (the StringBuffer representation could not be parsed)

See Also:

ParameterSet.ParameterSet(StringBuffer), Storable

ClassifierAssessmentAssessParameterSet

public ClassifierAssessmentAssessParameterSet(int elementLength,
                                              boolean exceptionIfMPNotComputable)
                                       throws SimpleParameter.IllegalValueException

Constructs a new ClassifierAssessmentAssessParameterSet with given parameter values.

Parameters:

elementLength - defines the length of elements (sequences) the classifiers to be assessed are able to classify

exceptionIfMPNotComputable - A ClassifierAssessmentAssessParameterSet is used in combination with a MeasureParameters-object to call assess( ... )-methods of ClassifierAssessments. If exceptionIfMPNotComputable==true an Exception is thrown if a user selected measure parameters that could not be computed.

Throws:

SimpleParameter.IllegalValueException - is thrown in case of out-of-range or invalid given parameters

See Also:

ParameterSet.ParameterSet()

Method Detail

initializeMyParametersArrayList

protected void initializeMyParametersArrayList()

Initializes the list of Parameters in this ClassifierAssessmentAssessParameterSet.

See Also:

ParameterSet.initParameterList(int initCapacity)

loadParameters

protected void loadParameters()
                       throws Exception

Description copied from class: ParameterSet

Loads the parameters for this ParameterSet. This is in most cases done by calling ParameterSet.initParameterList() or ParameterSet.initParameterList(int) to initialize ParameterSet.parameters and afterwards filling ParameterSet.parameters with instances of subclasses of Parameter.

Specified by:

loadParameters in class ParameterSet

Throws:

Exception - if the parameters could not be loaded

See Also:

Parameter, ParameterSet.parameters, ParameterSet.initParameterList(), ParameterSet.initParameterList(int)

getElementLength

public int getElementLength()

Returns the length of elements (sequences) defined by this ClassifierAssessmentAssessParameterSet.

Returns:

the element length defined by this ClassifierAssessmentAssessParameterSet

getExceptionIfMPNotComputable

public boolean getExceptionIfMPNotComputable()

Returns the flag defined by this ClassifierAssessmentAssessParameterSet.

Returns:

the flag defined by this ClassifierAssessmentAssessParameterSet (true : an exception is thrown if a user selected measure parameters that could not be computed, false: no exception is thrown)

getAnnotation

public Collection<Result> getAnnotation()

Returns a Collection of parameters containing informations about this ClassifierAssessmentAssessParameterSet.

Returns:

a Collection of parameters containing informations about this ClassifierAssessmentAssessParameterSet