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 the type attribute.");
if (!typeattribute.getNodeValue().equals(PeakMLWriter.TYPE_MASSCHROMATOGRAM))
throw new XmlParserException(
"IPeak ("
+ typeattribute.getNodeValue()
+ ") is not of type: '"
+ PeakMLWriter.TYPE_MASSCHROMATOGRAM
+ "'");
// parse this node as a mass chromatogram
MassChromatogram<? extends Peak> masschromatogram = parseMassChromatogram(node);
if (masschromatogram != null) peaks.add(masschromatogram);
//
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());
}
}
static {
try {
URL url = SpellCheckActivator.bundleContext.getBundle().getResource(RESOURCE_LOC);
InputStream stream = url.openStream();
if (stream == null) throw new IOException();
// strict parsing options
DocumentBuilderFactory factory = DocumentBuilderFactory.newInstance();
factory.setValidating(false);
factory.setIgnoringComments(true);
factory.setIgnoringElementContentWhitespace(true);
// parses configuration xml
/*-
* Warning: Felix is unable to import the com.sun.rowset.internal
* package, meaning this can't use the XmlErrorHandler. This causes
* a warning and a default handler to be attached. Otherwise this
* should have: builder.setErrorHandler(new XmlErrorHandler());
*/
DocumentBuilder builder = factory.newDocumentBuilder();
Document doc = builder.parse(stream);
// iterates over nodes, parsing contents
Node root = doc.getChildNodes().item(1);
NodeList categories = root.getChildNodes();
for (int i = 0; i < categories.getLength(); ++i) {
Node node = categories.item(i);
if (node.getNodeName().equals(NODE_DEFAULTS)) {
parseDefaults(node.getChildNodes());
} else if (node.getNodeName().equals(NODE_LOCALES)) {
parseLocales(node.getChildNodes());
} else {
logger.warn("Unrecognized category: " + node.getNodeName());
}
}
} catch (IOException exc) {
logger.error("Unable to load spell checker parameters", exc);
} catch (SAXException exc) {
logger.error("Unable to parse spell checker parameters", exc);
} catch (ParserConfigurationException exc) {
logger.error("Unable to parse spell checker parameters", exc);
}
}
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);
}
}
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());
}
}
private static void showDocument(Document doc) {
StringBuffer content = new StringBuffer();
Node node = doc.getChildNodes().item(0);
ApplicationNode appNode = new ApplicationNode(node);
content.append("Application \n");
List<ClassNode> classes = appNode.getClasses();
for (int i = 0; i < classes.size(); i++) {
ClassNode classNode = classes.get(i);
content.append(SPACE + "Class: " + classNode.getName() + " \n");
List<MethodNode> methods = classNode.getMethods();
for (int j = 0; j < methods.size(); j++) {
MethodNode methodNode = methods.get(j);
content.append(SPACE + SPACE + "Method: " + methodNode.getName() + " \n");
}
}
System.out.println(content.toString());
}
