Class NeighborGroups

java.lang.Object
  NeighborGroups

public class NeighborGroups

extends java.lang.Object

NeighborGroups stores assembly subunits in neighborgroups for fast collision detection.That is, it divides the subunits in an Assembly into groups of physically close neighbors for that methods which need to compare physically close subunits.

Field Summary

java.util.HashMap

groups

Constructor Summary

NeighborGroups()
Creates default NeighborGroups

NeighborGroups(Assembly asm)
Creates NeighborGroups with specified Assembly asm.

NeighborGroups(Assembly asm, boolean findLoop)
Constructs NeighborGroups to find near binding sites to bind them

Method Summary

boolean	findHindrance(Subunit sub)
java.util.Vector	findLoopCandidates(javax.vecmath.Vector3d bsTipPos)

Methods inherited from class java.lang.Object

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

Field Detail

groups

public java.util.HashMap groups

Constructor Detail

NeighborGroups

public NeighborGroups()

Creates default NeighborGroups

NeighborGroups

public NeighborGroups(Assembly asm)

Creates NeighborGroups with specified Assembly asm. actually sorts the Subunits in asm into neighborgroups according to a subdivision-spaced cubish grid

Parameters:

asm -

NeighborGroups

public NeighborGroups(Assembly asm,
                      boolean findLoop)

Constructs NeighborGroups to find near binding sites to bind them

Parameters:

asm -

findLoop -

Method Detail

findLoopCandidates

public java.util.Vector findLoopCandidates(javax.vecmath.Vector3d bsTipPos)

findHindrance

public boolean findHindrance(Subunit sub)