The code below simply reads in an XML file and prints it back to to a
file.  Unfortunately, it drops the !DOCTYPE element.  Any clue why this
is happening?

import java.io.IOException;
import javax.xml.parsers.DocumentBuilderFactory;
import javax.xml.parsers.ParserConfigurationException;
import org.w3c.dom.Document;
import org.xml.sax.SAXException;
import javax.xml.transform.Result;
import javax.xml.transform.Source;
import javax.xml.transform.Transformer;

Document doc = null;
try {
  // Create a builder factory
  DocumentBuilderFactory factory = DocumentBuilderFactory.newInstance();
  factory.setValidating(true);
  // Create the builder and parse the file
  Document doc = factory.newDocumentBuilder().parse(new File(filename));
} catch (SAXException e) {
  // A parsing error occurred; the xml input is not valid
} catch (ParserConfigurationException e) {
} catch (IOException e) {
}

// At this point, I have verified that doc.getDoctype points
// to valid data.

// Write data in memory (XML Document) to output stream
FileOutputStream tfos = new FileOutputStream("temp");
Result result = new StreamResult(tfos);
Source source = new DOMSource(hibernateDoc);
try {
  Transformer xformer = TransformerFactory.newInstance().newTransformer();
  xformer.transform(source, result);
} catch (TransformerConfigurationException e) {
  e.printStackTrace();
} catch (TransformerFactoryConfigurationError e) {
  e.printStackTrace();
} catch (TransformerException e) {
  e.printStackTrace();
}
tfos.close();

// At this point the "temp" file does not have a DOCTYPE element.