net.sourceforge.cilib.bioinf.rnaprediction
Class RNAFitness

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

All Implemented Interfaces:

Serializable, Measurement, Cloneable

Direct Known Subclasses:

Efn2RNAFitness, HydrogenBondFitness, MathewsFitness, MethewsFitness, SimpleRNAFitness, ViennaRNAFitness

public abstract class RNAFitness
extends Fitness

Author:

mneethling Abstract base class for fitness evaluation classes Implement the derived classes in such a way that lower fitness is better. ie. fitness should be minimised.

See Also:

Serialized Form

Field Summary

protected String

nucleotides

Constructor Summary

RNAFitness()

RNAFitness(String nuc)

Method Summary

abstract RNAFitness	getClone() Create a cloned copy of the current object and return it.
abstract 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

Field Detail

nucleotides

protected String nucleotides

Constructor Detail

RNAFitness

public RNAFitness()

RNAFitness

public RNAFitness(String nuc)

Method Detail

getClone

public abstract RNAFitness 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

Overrides:

getClone in class Fitness

Returns:

An exact clone of the current object instance.

See Also:

Object.clone()

getRNAFitness

public abstract Double getRNAFitness(RNAConformation stems)