Exemple #1
0
      public void onDocument(Document document, String xpath) throws XmlParserException {
        if (xpath.equals(XPATH_IPEAK)) {
          Node node = document.getFirstChild();

          // check whether we're getting the correct ipeak
          Node typeattribute = node.getAttributes().getNamedItem(PeakMLWriter.TYPE);
          if (typeattribute == null)
            throw new XmlParserException("Failed to locate the type attribute.");
          if (!typeattribute.getNodeValue().equals(PeakMLWriter.TYPE_BACKGROUNDION))
            throw new XmlParserException(
                "IPeak ("
                    + typeattribute.getNodeValue()
                    + ") is not of type: '"
                    + PeakMLWriter.TYPE_BACKGROUNDION
                    + "'");

          // parse this node as a mass chromatogram
          BackgroundIon<? extends Peak> backgroundion = parseBackgroundIon(node);
          if (backgroundion != null) peaks.add(backgroundion);

          //
          if (_listener != null && result.header != null && result.header.getNrPeaks() != 0)
            _listener.update((100. * index++) / result.header.getNrPeaks());
        } else if (xpath.equals(XPATH_HEADER)) {
          result.header = parseHeader(document.getFirstChild());
        }
      }
Exemple #2
0
      public void onDocument(Document document, String xpath) throws XmlParserException {
        if (xpath.equals(XPATH_IPEAK)) {
          Node node = document.getChildNodes().item(0);

          // check whether we're getting the correct ipeak
          Node typeattribute = node.getAttributes().getNamedItem(PeakMLWriter.TYPE);
          if (typeattribute == null)
            throw new XmlParserException("Failed to locate a type attribute.");

          // ...
          //					IPeak peak = (_loadall ? parseIPeak(node) : parseCentroid(node));
          IPeak peak = parseIPeak(node);
          if (peak != null) _listener.onIPeak(peak);
        } else if (xpath.equals(XPATH_HEADER)) {
          Header header = parseHeader(document.getFirstChild());
          _listener.onHeader(header);
        }
      }
Exemple #3
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      public void onDocument(Document document, String xpath) throws XmlParserException {
        if (xpath.equals(XPATH_IPEAK)) {
          Node node = document.getChildNodes().item(0);

          // check whether we're getting the correct ipeak
          Node typeattribute = node.getAttributes().getNamedItem(PeakMLWriter.TYPE);
          if (typeattribute == null
              || !typeattribute.getNodeValue().equals(PeakMLWriter.TYPE_PEAKSET))
            throw new XmlParserException("Failed to locate a type attribute.");

          // parse this node as a mass chromatogram
          IPeakSet<? extends IPeak> peakset = parsePeakSet(node);
          if (peakset != null) peaks.add(peakset);

          //
          if (_listener != null && result.header != null && result.header.getNrPeaks() != 0)
            _listener.update((100. * index++) / result.header.getNrPeaks());
        } else if (xpath.equals(XPATH_HEADER)) {
          result.header = parseHeader(document.getFirstChild());
        }
      }
Exemple #4
0
 public void onDocument(Document document, String xpath) throws XmlParserException {
   if (xpath.equals(XPATH_HEADER)) {
     result.header = parseHeader(document.getFirstChild());
     throw new XmlParserException("finished");
   }
 }