Examples of net.sf.samtools.util.RuntimeEOFException

net.sf.samtools.util.RuntimeEOFException
Thrown by various codecs to indicate EOF without having to clutter the API with throws clauses

      s.seek(0);
      si = new SAMIterator(s, referenceSequenceFile);
      si.setValidationStringency(validationStringency);
      it = si;
    } catch (IOException e) {
      throw new RuntimeEOFException(e);
    }


    Container c = null;
    for (int i = 0; i < filePointers.length; i += 2) {
      long containerOffset = filePointers[i] >>> 16;

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      si = new SAMIterator(s, referenceSequenceFile);
      si.setValidationStringency(validationStringency);
      s.seek(startOfLastLinearBin);
      it = si;
    } catch (IOException e) {
      throw new RuntimeEOFException(e);
    }


    return it;
  }

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      try {
        nextContainer();
        if (records.isEmpty())
          return false;
      } catch (Exception e) {
        throw new RuntimeEOFException(e);
      }
    }


    nextRecord = records.get(recordCounter++);
    return true;

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Related Classes of net.sf.samtools.util.RuntimeEOFException

net.sf.samtools.CRAMFileReader

net.sf.samtools.SAMIterator

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