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The protein structure modules of BioJava.

There is a newer version: 7.1.3

/*
 *                    BioJava development code
 *
 * This code may be freely distributed and modified under the
 * terms of the GNU Lesser General Public Licence.  This should
 * be distributed with the code.  If you do not have a copy,
 * see:
 *
 *      http://www.gnu.org/copyleft/lesser.html
 *
 * Copyright for this code is held jointly by the individual
 * authors.  These should be listed in @author doc comments.
 *
 * For more information on the BioJava project and its aims,
 * or to join the biojava-l mailing list, visit the home page
 * at:
 *
 *      http://www.biojava.org/
 *
 */
package org.biojava.nbio.structure;

import java.util.Iterator;

/**
 * Created by douglas on 1/23/15.
 */
public class AugmentedResidueRange extends ResidueRangeAndLength {

	private final AtomPositionMap map;

	public AugmentedResidueRange(String chain, ResidueNumber start, ResidueNumber end, int length, AtomPositionMap map) {
		super(chain, start, end, length);
		this.map = map;
	}

	public AugmentedResidueRange(String chain, String start, String end, int length, AtomPositionMap map) {
		super(chain, start, end, length);
		this.map = map;
	}


	/**
	 * Returns the ResidueNumber that is at position {@code positionInRange} in this ResidueRange.
	 * @return The ResidueNumber, or false if it does not exist or is not within this ResidueRange
	 */
	public ResidueNumber getResidue(int positionInRange) {
		return super.getResidue(positionInRange, map);
	}

	/**
	 * @return True if and only if {@code residueNumber} is within this ResidueRange
	 */
	public boolean contains(ResidueNumber residueNumber) {
		return super.contains(residueNumber, map);
	}

	/**
	 * Returns a new Iterator over every {@link ResidueNumber} in this ResidueRange.
	 * Stores the contents of {@code map} until the iterator is finished, so calling code should set the iterator to {@code null} if it did not finish.
	 */
	public Iterator iterator() {
		return super.iterator(map);
	}

}