Package net.sf.samtools

Examples of net.sf.samtools.SAMTextHeaderCodec

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  }

  private static byte[] toByteArray(SAMFileHeader samFileHeader) {
    ExposedByteArrayOutputStream headerBodyOS = new ExposedByteArrayOutputStream();
    OutputStreamWriter w = new OutputStreamWriter(headerBodyOS);
    new SAMTextHeaderCodec().encode(w, samFileHeader);
    try {
      w.close();
    } catch (IOException e) {
      throw new RuntimeException(e);
    }
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    byte[] bytes = new byte[size];
    dis.readFully(bytes);

    BufferedLineReader r = new BufferedLineReader(new ByteArrayInputStream(
        bytes));
    return new SAMTextHeaderCodec().decode(r, id);
  }
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  }

  private String toString(SAMFileHeader h) {
    ByteArrayOutputStream baos = new ByteArrayOutputStream();
    OutputStreamWriter w = new OutputStreamWriter(baos);
    new SAMTextHeaderCodec().encode(w, h);
    try {
      w.close();
    } catch (IOException e) {
      throw new RuntimeException(e);
    }
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Related Classes of net.sf.samtools.SAMTextHeaderCodec

  • net.sf.cram.ReadWrite
  • structure.TestContainer
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