org.proteinshader.structure.visitor
Class BondDestroyerVisitor

java.lang.Object
  org.proteinshader.structure.visitor.Visitor
      org.proteinshader.structure.visitor.BondDestroyerVisitor

public class BondDestroyerVisitor
extends Visitor

Removes Bonds on all Atoms that it visits.

The default is to remove the Bonds on all Atoms, but the setRestriction() method can be called to specify that only a subset of Atoms have their Bonds removed.

Usage

structure.accept( new BondDestroyerVisitor() );

would remove Bonds on all Residues, while

Visitor visitor = new BondDestroyerVisitor();
visitor.setRestriction( ResidueEnum.AMINO_ACIDS );
structure.accept( visitor );

would only remove Bonds for the AminoAcids.

Note on Exception Handling

Currently, the VisitorException in the visit( Atom ) method is only there to satisfy the Visitor API (other Visitors such as the SFWriterVisitor do need an exception in the visit() method declaration).

Constructor Summary

BondDestroyerVisitor()
Constructs a BondDestroyerVisitor.

Method Summary

void	visit(Atom atom) Removes all Bonds on the Atom.

Methods inherited from class org.proteinshader.structure.visitor.Visitor

clear, includeAAHetAndWater, setDebug, setMode, setMode, setMode, setMode, setMode, setMode, setVisitSegments, visit, visit, visit, visit, visit, visit, visit, visit, visit, visit, visit

Methods inherited from class java.lang.Object

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

Constructor Detail

BondDestroyerVisitor

public BondDestroyerVisitor()

Constructs a BondDestroyerVisitor.

Method Detail

visit

public void visit(Atom atom)
           throws VisitorException

Removes all Bonds on the Atom.

Overrides:

visit in class Visitor

Parameters:

atom - the Atom to visit.

Throws:

VisitorException - will not happen.