org.jaga.exampleApplications.proteinLocation
Class ProgressiveTestGroupSizeHook

java.lang.Object
  org.jaga.hooks.SimpleGAHook
      org.jaga.exampleApplications.proteinLocation.ProgressiveTestGroupSizeHook

public class ProgressiveTestGroupSizeHook

extends SimpleGAHook

TODO: Complete these comments.

Project: JAGA - Java API for Genetic Algorithms.

Company: University College London and JAGA.Org (http://www.jaga.org).

Copyright: (c) 2004 by G. Paperin.
This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, ONLY if you include a note of the original author(s) in any redistributed/modified copy.
This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.
You should have received a copy of the GNU General Public License along with this program; if not, write to the Free Software Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA or see http://www.gnu.org/licenses/gpl.html

Version:

JAGA public release 1.0 beta

Author:

Greg Paperin (greg@jaga.org)

Field Summary

private ProteinGroup	allNegatives
private int	allNegativesIndex
private ProteinGroup	allPositives
private int	allPositivesIndex
private double	averagePatternLen
private int	averagePatternLenGen
private boolean	boosting
private int	boostStartTimeout
private int	boostStopTimeout
private AnalysisHook	cooperator
private int	lastSizeIncreaseGen
private double	mutationBoost
private double	mutProb
private ProteinGroup	testNegatives
private ProteinGroup	testPositives
private int	testSetSizeDelta
private int	timeToBoost
private int	timeToStopBoost
private double	triggerFitness

Constructor Summary

private	ProgressiveTestGroupSizeHook()
	ProgressiveTestGroupSizeHook(ProteinGroup allPositives, ProteinGroup allNegatives, ProteinGroup testPositives, ProteinGroup testNegatives, int initialTestSetSize, int testSetSizeDelta, double triggerFitness, double mutationBoost, int boostStartTimeout, int boostStopTimeout, GAParameterSet params)

Method Summary

void	foundNewResult(SimpleGA caller, Population pop, int age, GAResult result, GAParameterSet params)
void	generationChanged(SimpleGA caller, Population pop, int age, GAResult result, GAParameterSet params)
private void	printInfo()
void	setAnalysisHookForCooperation(AnalysisHook cooperator)
private void	startBoost(GAParameterSet params)
private void	stopBoost(GAParameterSet params)

Methods inherited from class org.jaga.hooks.SimpleGAHook

fitnessCalculated, initialisationDone, reproduced, selectedForReproduction, terminationConditionApplies

Methods inherited from class java.lang.Object

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

Field Detail

mutationBoost

private double mutationBoost

boostStartTimeout

private int boostStartTimeout

boostStopTimeout

private int boostStopTimeout

allPositives

private ProteinGroup allPositives

allNegatives

private ProteinGroup allNegatives

testPositives

private ProteinGroup testPositives

testNegatives

private ProteinGroup testNegatives

testSetSizeDelta

private int testSetSizeDelta

triggerFitness

private double triggerFitness

allPositivesIndex

private int allPositivesIndex

allNegativesIndex

private int allNegativesIndex

cooperator

private AnalysisHook cooperator

averagePatternLen

private double averagePatternLen

averagePatternLenGen

private int averagePatternLenGen

mutProb

private double mutProb

lastSizeIncreaseGen

private int lastSizeIncreaseGen

boosting

private boolean boosting

timeToBoost

private int timeToBoost

timeToStopBoost

private int timeToStopBoost

Constructor Detail

ProgressiveTestGroupSizeHook

private ProgressiveTestGroupSizeHook()

ProgressiveTestGroupSizeHook

public ProgressiveTestGroupSizeHook(ProteinGroup allPositives,
                                    ProteinGroup allNegatives,
                                    ProteinGroup testPositives,
                                    ProteinGroup testNegatives,
                                    int initialTestSetSize,
                                    int testSetSizeDelta,
                                    double triggerFitness,
                                    double mutationBoost,
                                    int boostStartTimeout,
                                    int boostStopTimeout,
                                    GAParameterSet params)

Method Detail

startBoost

private void startBoost(GAParameterSet params)

stopBoost

private void stopBoost(GAParameterSet params)

foundNewResult

public void foundNewResult(SimpleGA caller,
                           Population pop,
                           int age,
                           GAResult result,
                           GAParameterSet params)

Overrides:

foundNewResult in class SimpleGAHook

generationChanged

public void generationChanged(SimpleGA caller,
                              Population pop,
                              int age,
                              GAResult result,
                              GAParameterSet params)

Overrides:

generationChanged in class SimpleGAHook

setAnalysisHookForCooperation

public void setAnalysisHookForCooperation(AnalysisHook cooperator)

printInfo

private void printInfo()