content: /*
   * The MIT License (MIT)
   *
   * Copyright (c) 2011-2021 Broad Institute, Aiden Lab, Rice University, Baylor College of Medicine
   *
   * Permission is hereby granted, free of charge, to any person obtaining a copy
   * of this software and associated documentation files (the "Software"), to deal
   * in the Software without restriction, including without limitation the rights
   * to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
   * copies of the Software, and to permit persons to whom the Software is
   * furnished to do so, subject to the following conditions:
   *
   * The above copyright notice and this permission notice shall be included in
   * all copies or substantial portions of the Software.
   *
   *  THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
   *  IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
   *  FITNESS FOR A PARTICULAR PURPOSE AND NON-INFRINGEMENT. IN NO EVENT SHALL THE
   *  AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
   *  LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
   *  OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
   *  THE SOFTWARE.
   */
  
  
  package juicebox.tools.utils.original.mnditerator;
  
  import juicebox.data.ChromosomeHandler;
  
  import java.io.IOException;
  import java.util.Iterator;
  import java.util.Map;
  
  /**
   * @author Jim Robinson
   * @since 9/24/11
   */
  public interface PairIterator extends Iterator<AlignmentPair> {
  
      boolean hasNext();
  
      AlignmentPair next();
  
      void remove();
  
      void close();
  
      static PairIterator getIterator(String file, Map<String, Integer> chromosomeIndexes, ChromosomeHandler chromosomeHandler) throws IOException {
          if (file.endsWith(".bin")) {
              return new BinPairIterator(file);
          } else if (file.endsWith(".bn")) {
              return new ShortBinPairIterator(file);
          } else {
              return new AsciiPairIterator(file, chromosomeIndexes, chromosomeHandler, false);
          }
      }
  }
  