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 juicebox.tools.utils.original.Chunk;
  
  import java.io.IOException;
  import java.util.Map;
  
  /**
   * @author Jim Robinson
   * @since 9/24/11
   */
  public class RandomAccessAsciiPairIterator extends AsciiPairIterator {
      public RandomAccessAsciiPairIterator(String path, Map<String, Integer> chromosomeOrdinals, long mndIndex, int mndChunk, ChromosomeHandler handler) throws IOException {
          super(path, chromosomeOrdinals, new Chunk(mndIndex, mndChunk), handler);
      }
  
      /*
  
      to use RandomAccessFile, we only need to adjust constructor below, don't duplicate all code from asciipairiterator
      however, since this isn't even being used, I'm just commenting it out - MSS
  
      public AsciiPairIterator(String path, Map<String, Integer> chromosomeOrdinals, long mndIndex,
                               int mndChunk, ChromosomeHandler handler) throws IOException {
          this.handler = handler;
          if (path.endsWith(".gz")) {
              System.err.println("Multithreading with indexed mnd currently only works with unzipped mnd");
              System.exit(70);
          } else {
              reader = new RandomAccessFile(path, "r");
              reader.getChannel().position(mndIndex);
              this.mndStart = mndIndex;
              this.mndChunkSize = mndChunk;
              this.stopAfterChunk = true;
          }
          this.chromosomeOrdinals = chromosomeOrdinals;
          advance();
      }
  
       */
  }
  