code: public void addAtoms(Atom[] atoms, BoundingBox bounds) {
  		this.iAtoms = Calc.atomsToPoints(atoms);
  		this.iAtomObjects = atoms;
  
  		if (bounds!=null) {
  			this.ibounds = bounds;
  		} else {
  			this.ibounds = new BoundingBox(iAtoms);
  		}
  
  		this.jAtoms = null;
  		this.jAtomObjects = null;
  		this.jbounds = null;
  
  		fillGrid();
  	}
docs: Adds a set of atoms, subsequent call to {@link #getIndicesContacts()} or {@link #getAtomContacts()} will produce the interatomic contacts.
  The bounds calculated elsewhere can be passed, or if null they are computed.
  @param atoms
  @param bounds