Examples of nu.xom.xslt.XSLTransform$FatalListener

nu.xom.xslt.XSLTransform
Serves as an interface to a TrAX aware XSLT processor such as Xalan or Saxon. The following example shows how to apply an XSL Transformation to a XOM document and get the transformation result in the form of a XOM Nodes:
```
public static Nodes transform(Document in)  throws XSLException, ParsingException, IOException { Builder builder = new Builder(); Document stylesheet = builder.build("mystylesheet.xsl"); XSLTransform transform = new XSLTransform(stylesheet); return transform.transform(doc); } 
```
XOM relies on TrAX to perform the transformation. The javax.xml.transform.TransformerFactory Java system property determines which XSLT engine TrAX uses. Its value should be the fully qualified name of the implementation of the abstract javax.xml.transform.TransformerFactory class. Values of this property for popular XSLT processors include:
- Saxon 6.x: com.icl.saxon.TransformerFactoryImpl
- Saxon 7.x and 8.x: net.sf.saxon.TransformerFactoryImpl
- Xalan interpretive: org.apache.xalan.processor.TransformerFactoryImpl
- Xalan XSLTC: org.apache.xalan.xsltc.trax.TransformerFactoryImpl
- jd.xslt: jd.xml.xslt.trax.TransformerFactoryImpl
- Oracle: oracle.xml.jaxp.JXSAXTransformerFactory
- Java 1.5 bundled Xalan: com.sun.org.apache.xalan.internal.xsltc.trax.TransformerFactoryImpl
This property can be set in all the usual ways a Java system property can be set. TrAX picks from them in this order:
1. The most recent value specified by invoking System.setProperty("javax.xml.transform.TransformerFactory", "classname")
2. The value specified at the command line using the -Djavax.xml.transform.TransformerFactory=classname option to the java interpreter
3. The class named in the lib/jaxp.properties properties file in the JRE directory, in a line like this one:
```
javax.xml.parsers.DocumentBuilderFactory=classname
```
4. The class named in the META-INF/services/javax.xml.transform.TransformerFactory file in the JAR archives available to the runtime
5. Finally, if all of the above options fail, a default implementation is chosen. In Sun's JDK 1.4.0 and 1.4.1, this is Xalan 2.2d10. In JDK 1.4.2, this is Xalan 2.4. In JDK 1.4.2_02, this is Xalan 2.4.1. In JDK 1.4.2_03, 1.5 beta 2, and 1.5 RC1 this is Xalan 2.5.2. In JDK 1.4.2_05, this is Xalan 2.4.1. (Yes, Sun appears to have reverted to 2.4.1 in 1.4.2_05.)
@author Elliotte Rusty Harold @version 1.1b3


        // XOM passes the Base URI to Xalan as the SystemId, which cannot be empty.
        URI svrlUri = getLoader().getResource(resourceName).toURI();
        svrlStylesheet.setBaseURI(svrlUri.toString());


        _schematronSvrlTransforms.put(resourceName, new XSLTransform(svrlStylesheet));
      }
      catch (URISyntaxException e) {
        throw new IOException(e.getMessage());
      }
    }

View Full Code Here

   * @return The results of the XSL transform.
   */
  public static Document runXSLOnInline(Document inline, String sheetName) {
    try {
      Document xslDoc = new ResourceGetter("uk/ac/cam/ch/wwmm/oscar3/misc/resources/").getXMLDocument(sheetName);
      XSLTransform xslt = new XSLTransform(xslDoc);
      Nodes n = xslt.transform(inline);
      return XSLTransform.toDocument(n);
    } catch (Exception e) {
      e.printStackTrace();
      return inline;
    }

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  private OnAnnotated() {
    try {
      ResourceGetter rg = new ResourceGetter("uk/ac/cam/ch/wwmm/ptc/experimental/resources/");
      Document xsltDoc = rg.getXMLDocument("toSciXML.xsl");
      xslt = new XSLTransform(xsltDoc);      
    } catch (Exception e) {
      throw new Error(e);
    }
  }

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    return getInstance().subTypes.get(type);
  }
  
  private Document getSciXMLDocInternal() {
    try {
      XSLTransform xslt = new XSLTransform(rg.getXMLDocument("typesToSciXML.xsl"));
      return XSLTransform.toDocument(xslt.transform(typeDoc));
    } catch (Exception e) {
      e.printStackTrace();
      throw new Error("Couldn't make NETypes SciXML");      
    }
  }

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    }
    System.out.println(nodeNames);
    
    ResourceGetter rg = new ResourceGetter("uk/ac/cam/ch/wwmm/ptc/experimental/resources/");
    
    XSLTransform xslt = new XSLTransform(rg.getXMLDocument("patents2.xsl"));
    
    Nodes paperNodes = doc.query("/PAPERS/PAPER");
    
    File outFolder = new File("/home/ptc24/newows/corpora/NewSciXMLPatents2");
    if(!outFolder.exists()) outFolder.mkdir();
    
    for(int i=0;i<paperNodes.size();i++) {      
      Node node = paperNodes.get(i);
      node.detach();
      assert(node instanceof Element);
      Element e = (Element)node;
      Document newDoc = new Document(e);
      Document sciXML = XSLTransform.toDocument(xslt.transform(newDoc));
      
      String title = sciXML.query("/PAPER/CURRENT_TITLE").get(0).getValue().trim();
      assert(title.length() > 0);
      title = title.replaceAll(" ", "_");
      System.out.println(title);

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  /**
   * @param args
   */
  public static void main(String[] args) throws Exception {
    XSLTransform xslt = new XSLTransform(rg.getXMLDocument("relations.xsl"));
    
    String inchiStr = ChemNameDictSingleton.getInChIForShortestSmiles("morphine");
    String ontID = "CHEBI:23888";
    File dir = new File("/home/ptc24/newows/corpora/BioIE");
    List<File> sourceFiles = FileTools.getFilesFromDirectoryByName(dir, "source.xml");

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    Document xsltDoc = new Builder().build(new File("/local/scratch/ptc24/base_corpus/rsc/rsc_art2paper_rng.xsl"));
    //Document xsltDoc = new Builder().build(new File("/local/scratch/ptc24/base_corpus/nature/npg_art2paper_rng.xsl"));
    //Document xsltDoc = new Builder().build(new File("/local/scratch/ptc24/tmp_corpus/iuc/iucr_art2paper_rng.xsl"));
    //Document xsltDoc = new Builder().build(new File("/local/scratch/ptc24/base_corpus/iuc/iucr_art2paper_rng.xsl"));
    //Document xsltDoc = new Builder().build(new File("/home/ptc24/iucr_art2paper_rng.xsl"));
    XSLTransform xslt = new XSLTransform(xsltDoc);
    
    //List<File> files = FileTools.getFilesFromDirectoryBySuffix(new File("/usr/groups/sciborg/texts/iuc"), ".xml");
    List<File> files = FileTools.getFilesFromDirectoryBySuffix(new File("/usr/groups/sciborg/texts/rsc/paperset1"), ".xml");
    //List<File> files = FileTools.getFilesFromDirectoryBySuffix(new File("/usr/groups/sciborg/texts/nature/nature_2"), ".xml");
    //List<File> files = FileTools.getFilesFromDirectoryBySuffix(new File("/local/scratch/ptc24/rscorig"), ".xml");
    //files=files.subList(13,14);
    System.out.println(files);
    int i=0;
    for(File paper : files) {


      System.out.println(paper.getName());
      System.out.println(i++);
      try {
      Document xml1;
      Document xml2;
      XMLAlignment xa;
      if(true) {
        xml1 = new Builder().build(paper);
      
        PubXMLToSciXML.addNodeIds(xml1.getRootElement(), xml1.getRootElement());
      
        Nodes n = xslt.transform(xml1);
        xml2 = XSLTransform.toDocument(n);
        xa = new XMLAlignment(xml2, xml1, true);
        xa.testXML1ForOscar();
        //new Serializer(System.out).write(xml1);
        //new Serializer(System.out).write(xml2);

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  private XSLTransform xslt;
  private File papersDir;
  
  public GENIACorpusNodeFactory(File papersDir) throws Exception {
    super();
    xslt = new XSLTransform(rg.getXMLDocument("GENIAToSciXML.xsl"));
    this.papersDir = papersDir;
    if(!papersDir.exists()) papersDir.mkdir();
  }

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          //System.out.println("mode2doc: " + mode2doc.toString());  
          System.out.println("rg: " + rg.toString());
          
             Document stylesheet = rg.getXMLDocument("xsl/clearMode2.xsl");
             System.out.println("Found clearMode2.xsl");
             XSLTransform transform = new XSLTransform(stylesheet);
             Document clearDoc = XSLTransform.toDocument(transform.transform(mode2doc));
             ARTSciXMLDocument clearedDoc = ARTSciXMLDocument.makeFromDoc(clearDoc);
             ap.writeMode2Doc(clearedDoc);
             response.setContentType("text/plain");
             response.getWriter().print(name);
             /*mode2doc = ap.getMode2Doc();

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      fos.close();
    }      
  }
  
  private static Map<String, SciXMLDocument> getSciXML(Document pubmedResults) throws Exception {
    XSLTransform xslt = new XSLTransform(new ResourceGetter("uk/ac/cam/ch/wwmm/ptclib/scixml/resources/").getXMLDocument("pubmed2scixml.xsl"));
    Map<String, SciXMLDocument> docs = new LinkedHashMap<String, SciXMLDocument>();
    Nodes n = pubmedResults.query("/PubmedArticleSet/PubmedArticle");
    for(int i=0;i<n.size();i++) {
      try {
        if(n.get(i).query(".//ArticleTitle").size() == 0) continue;
        if(n.get(i).query(".//AbstractText").size() == 0) continue;
        if(n.get(i).query(".//PMID").size() == 0) continue;
        String id = n.get(i).query(".//PMID").get(0).getValue();
        Element elem = (Element)n.get(i);
        elem.detach();
        Document d = new Document(elem);
        Document out = XSLTransform.toDocument(xslt.transform(d));
        docs.put(id, SciXMLDocument.makeFromDoc(out));
      } catch (Exception e) {
        e.printStackTrace();
        System.err.println("Hmm, couldn't parse that abstract.");
      }

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