org.biojava3.alignment.routines
Class AlignerHelper.Cut

java.lang.Object
  extended by org.biojava3.alignment.routines.AlignerHelper.Cut
Enclosing class:
AlignerHelper

public static class AlignerHelper.Cut
extends Object

Defines a 'cut' row for divide-and-conquer alignment in which a new anchor is found.


Constructor Summary
AlignerHelper.Cut(int queryIndex, int[] dim)
           
 
Method Summary
 int getQueryIndex()
           
 int getTargetIndex(int z)
           
 void update(int x, int[] subproblem, AlignerHelper.Last[][] pointers)
           
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Constructor Detail

AlignerHelper.Cut

public AlignerHelper.Cut(int queryIndex,
                         int[] dim)
Method Detail

getQueryIndex

public int getQueryIndex()

getTargetIndex

public int getTargetIndex(int z)

update

public void update(int x,
                   int[] subproblem,
                   AlignerHelper.Last[][] pointers)