org.biojava.bio.structure.align.pairwise
Class FragmentPair

java.lang.Object
  extended by org.biojava.bio.structure.align.pairwise.FragmentPair

public class FragmentPair
extends Object

a pair of fragments of two protein structures

Since:
1.5
Version:
%I% %G%
Author:
Andreas Prlic

Constructor Summary
FragmentPair(int length, int p1, int p2)
           
 
Method Summary
 Object clone()
           
 Atom getCenter1()
           
 Atom getCenter2()
           
 int getCluster()
           
 int getContacts()
           
 int getCovered()
           
 int getLength()
           
 int getPos1()
           
 int getPos2()
           
 double getRms()
           
 Matrix getRot()
           
 Atom getTrans()
           
 Atom getUnitv()
           
 int getUsed()
           
 void setCenter1(Atom center1)
           
 void setCenter2(Atom center2)
           
 void setCluster(int cluster)
           
 void setContacts(int contacts)
           
 void setCovered(int covered)
           
 void setLength(int length)
           
 void setPos1(int pos1)
           
 void setPos2(int pos2)
           
 void setRms(double rms)
           
 void setRot(Matrix rot)
           
 void setTrans(Atom trans)
           
 void setUnitv(Atom unitv)
           
 void setUsed(int used)
           
 String toString()
           
 
Methods inherited from class java.lang.Object
equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait
 

Constructor Detail

FragmentPair

public FragmentPair(int length,
                    int p1,
                    int p2)
Method Detail

clone

public Object clone()
Overrides:
clone in class Object

getCluster

public int getCluster()

setCluster

public void setCluster(int cluster)

getContacts

public int getContacts()

setContacts

public void setContacts(int contacts)

getCovered

public int getCovered()

setCovered

public void setCovered(int covered)

getLength

public int getLength()

setLength

public void setLength(int length)

getPos1

public int getPos1()

setPos1

public void setPos1(int pos1)

getPos2

public int getPos2()

setPos2

public void setPos2(int pos2)

getRms

public double getRms()

setRms

public void setRms(double rms)

getRot

public Matrix getRot()

setRot

public void setRot(Matrix rot)

getTrans

public Atom getTrans()

setTrans

public void setTrans(Atom trans)

getUnitv

public Atom getUnitv()

setUnitv

public void setUnitv(Atom unitv)

getUsed

public int getUsed()

setUsed

public void setUsed(int used)

getCenter1

public Atom getCenter1()

setCenter1

public void setCenter1(Atom center1)

getCenter2

public Atom getCenter2()

setCenter2

public void setCenter2(Atom center2)

toString

public String toString()
Overrides:
toString in class Object