/*
 * Jalview - A Sequence Alignment Editor and Viewer
 * Copyright (C) 2006 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
 *
 * This program is free software; you can redistribute it and/or
 * modify it under the terms of the GNU General Public License
 * as published by the Free Software Foundation; either version 2
 * of the License, or (at your option) any later version.
 *
 * This program is distributed in the hope that it will be useful,
 * but WITHOUT ANY WARRANTY; without even the implied warranty of
 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
 * GNU General Public License for more details.
 *
 * You should have received a copy of the GNU General Public License
 * along with this program; if not, write to the Free Software
 * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA
 */
package jalview.datamodel;

public class CigarCigar
    extends CigarSimple
{
  SeqCigar refCigar;
    /**
     * Apply CIGAR operations to the result of another cigar
     * @param cigar Cigar
     */
    CigarCigar(SeqCigar cigar) {
      super();
      refCigar = cigar;
    }
  /**
   *
   * @return String formed by applying CIGAR operations to the reference object
   * @param GapChar char
   * @todo Implement this jalview.datamodel.Cigar method
   */
  public String getSequenceString(char GapChar)
  {
    if (length==0)
      return "";
    String refString = refCigar.getSequenceString(GapChar);
    if (refString!=null) {
      return (length==0) ? "" : (String) getSequenceAndDeletions(refString, GapChar)[0];
    } else
      return null;
  }

}