PIP.Domains.Orientation
Class OrientatedDomInt

java.lang.Object
  PIP.Domains.Orientation.OrientatedDomInt

public class OrientatedDomInt
extends java.lang.Object

Constructor Summary

OrientatedDomInt(DomainInteraction di, java.util.List<java.lang.Character> alignmentA, java.util.List<java.lang.Character> alignmentB, double[][] transA, double[][] transB)

Method Summary

double[]	convert2DArrayTo1D(double[][] twoD, double[] oneD)
java.util.List<java.lang.Character>	getAlignmentA()
java.util.List<java.lang.Character>	getAlignmentB()
DomainInteraction	getDi()
double[]	getTransformationMatrixA()
double[]	getTransformationMatrixB()
void	setAlignmentA(java.util.List<java.lang.Character> alignmentA)
void	setAlignmentB(java.util.List<java.lang.Character> alignmentB)
void	setDi(DomainInteraction di)
void	setTransformationMatrixA(double[][] transformationMatrixA)
void	setTransformationMatrixB(double[][] transformationMatrixB)

Methods inherited from class java.lang.Object

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

Constructor Detail

OrientatedDomInt

public OrientatedDomInt(DomainInteraction di,
                        java.util.List<java.lang.Character> alignmentA,
                        java.util.List<java.lang.Character> alignmentB,
                        double[][] transA,
                        double[][] transB)

Method Detail

convert2DArrayTo1D

public double[] convert2DArrayTo1D(double[][] twoD,
                                   double[] oneD)

getDi

public DomainInteraction getDi()

setDi

public void setDi(DomainInteraction di)

getTransformationMatrixB

public double[] getTransformationMatrixB()

setTransformationMatrixB

public void setTransformationMatrixB(double[][] transformationMatrixB)

getAlignmentA

public java.util.List<java.lang.Character> getAlignmentA()

getAlignmentB

public java.util.List<java.lang.Character> getAlignmentB()

getTransformationMatrixA

public double[] getTransformationMatrixA()

setAlignmentA

public void setAlignmentA(java.util.List<java.lang.Character> alignmentA)

setAlignmentB

public void setAlignmentB(java.util.List<java.lang.Character> alignmentB)

setTransformationMatrixA

public void setTransformationMatrixA(double[][] transformationMatrixA)