net.sourceforge.cilib.bioinf.rnaprediction
Class SimpleRNAFitness

java.lang.Object
  net.sourceforge.cilib.measurement.single.Fitness
      net.sourceforge.cilib.bioinf.rnaprediction.RNAFitness
          net.sourceforge.cilib.bioinf.rnaprediction.SimpleRNAFitness

All Implemented Interfaces:

Serializable, Measurement, Cloneable

public class SimpleRNAFitness
extends RNAFitness

Author:

mneethling This fitness class calculates the fitness of the conformation by adding up the number of contacts in the conformation and subtracting that number from the length of the nucleotide string. Thus, fitness should be minimised.

See Also:

Serialized Form

Field Summary

Fields inherited from class net.sourceforge.cilib.bioinf.rnaprediction.RNAFitness

nucleotides

Constructor Summary

SimpleRNAFitness()

SimpleRNAFitness(SimpleRNAFitness copy)

Method Summary

SimpleRNAFitness	getClone() Create a cloned copy of the current object and return it.
Double	getRNAFitness(RNAConformation stems)

Methods inherited from class net.sourceforge.cilib.measurement.single.Fitness

getDomain, getValue

Methods inherited from class java.lang.Object

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

Constructor Detail

SimpleRNAFitness

public SimpleRNAFitness()

SimpleRNAFitness

public SimpleRNAFitness(SimpleRNAFitness copy)

Method Detail

getClone

public SimpleRNAFitness getClone()

Description copied from class: Fitness

Create a cloned copy of the current object and return it. In general the created copy will be a deep copy of the provided instance. As a result this operation an be quite expensive if used incorrectly.

Specified by:

getClone in interface Measurement

Specified by:

getClone in interface Cloneable

Specified by:

getClone in class RNAFitness

Returns:

An exact clone of the current object instance.

See Also:

Object.clone()

getRNAFitness

public Double getRNAFitness(RNAConformation stems)

Specified by:

getRNAFitness in class RNAFitness