ModelDemo2.java

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package cedar.hepdata.webapp;

import cedar.hepdata.model.*;
import cedar.hepdata.xml.*;

import java.io.*;
import java.util.*;
import javax.servlet.*;
import javax.servlet.http.*;

import org.exolab.castor.xml.Unmarshaller;


public class ModelDemo2 extends HttpServlet {

    public String getServletInfo() {
        return "Test servlet. Do not use.";
    }


    public void doGet(HttpServletRequest request, HttpServletResponse response) throws IOException, ServletException {
        response.setContentType("text/html");
        PrintWriter out = response.getWriter();

        out.println("<h1>Model demo2</h1>");
        out.println("<p>Reading in data from an xml file!</p>");

        out.println(request.getParameter("irn"));
        String irn = request.getParameter("irn");
        
        Paper p = null;
        try {
//            Data data = XMLUtils.getDataFromHepML(new File("/home/whalley/hd/hepdata-webapp/xml/test.hepml.xml"));
            Data data = XMLUtils.getDataFromHepML(new File("/home/whalley/hd/hepdata-migration/shapes-hepml/"+ irn + ".hep.xml"));
            if (data != null) p = data.getFirstPaper();
            if (p == null) throw new Exception("Null paper");
        } catch (Exception e) {
            out.println("Exception: " + e.toString());
            out.println("<pre>");
            e.printStackTrace(out);
            out.println("</pre>");
            return;
        }
        
//      out.println("<pre>" + p.toString() + "</pre>");
        // this is my new code
        StringBuffer s = new StringBuffer();
        out.println("<pre>");
        out.println("irn = " + p.getSpiresId());
        out.println("red = " + p.getRedId());
        int icom = 0;
        for ( String comment : p.getComments() ){
            icom++;
            out.println(icom + ":" + comment);
        }
        int imod = 0;
        for ( Modification modification : p.getModifications() ){
            imod++;
            if(imod == 1){out.println("Created on " + modification.getTimestamp() + " by " + modification.getModifier());}
            else        {out.println("Modified on " + modification.getTimestamp() + " by " + modification.getModifier());}
        }
        for (String auth: p.getAuthors() ) {
            out.println("author: "  + auth);
        }
        out.println("Title:" + p.getTitle());

        out.println("Number if references are: " + p.getReferences().size()); 

        for (Reference ref : p.getReferences() ) {
            out.println("Reference:"  + ref.getDescription());
        }
        for (Experiment exp : p.getExperiments() ) {
            out.println("Experiment:"  + exp.getName());
            out.println("Laboratory:"  + exp.getLaboratory());
            out.println("InformalName:"  + exp.getInformalName());
        }
        out.println("</pre>");  
        out.println("Next the datasets....\n"); 

        int ndata = 0;
        for ( Dataset d : p.getDatasets() ) {
            ndata++;
            for (DatasetError de : d.getErrors() ) {
                out.println("\n Dataset Error");
                if (de.getComment() != null) { out.println("<br>" + de.getComment() ); }
                if (de.getPlus() != null) { out.println("<br>" + de.getPlus() ); }
                if (de.getMinus() != null) { out.println("<br>" + de.getMinus() ); }
                if (de.getSourceType() != null) { out.println("<br>" + de.getSourceType() ); }
                if (de.getNormType() != null) { out.println("<br>" + de.getNormType() ); }
            }

// count the number of x and y axes and the number of bins

            int ny = d.getYAxes().size();
            int nx = d.getXAxes().size();
            int npoints = 0;
            for (XAxis x : d.getXAxes()){npoints = x.getBins().size();}
           
// counting done
// output each y axis in turn in a separate table
            int my = 0;
            for (YAxis y : d.getYAxes()){
              my++;
// first the reactions for this yaxis
              out.println("<table border=1>");
              int nspan = nx+1;
              out.println("<th colspan=" + nspan + ">Dataset " + ndata + " yaxis " + my + "</th></tr><tr>");
              for ( Reaction reac : y.getReactions() ){
                for (XAxis x : d.getXAxes()){
                  out.println("<th> -  </th>");
                }
                  out.println("<th>");
        
                  for ( Particle part : reac.getInitialState() ){
                    out.println(part.getName() + " ");
                  }
                  out.println("-->");
                  for ( Particle part : reac.getFinalState() ){
                   out.println(part.toString());
                    if (part.getMultRelation() != Relation.EQUALS) {out.println( part.getMultRelation() );}
                    if (part.getMultiplicity() > 1) {out.println( part.getMultiplicity() );}
                    out.println(part.getName() + " ");
                  }
                  out.println("</th></tr>");
              }

// next the yaxis comments (non-numerical properties!)
              for (String comment : y.getComments()){
                out.println("<tr>");
                for (XAxis x : d.getXAxes()){
                  out.println("<th> -  </th>");
                }
                out.println("<th>" + comment + "</th></tr>");
              }
              
// next the properties
              for ( Property prop: y.getProperties() ){
                out.println("<tr>");
                for (XAxis x : d.getXAxes()){
                out.println("<th> -  </th>");
                }
                out.println("<th>");
                out.println( prop.getName() + " : ");
                if (prop.getLowValue() != null && prop.getHighValue() != null &&
                      prop.getLowValue().equals(prop.getHighValue())) {
                      out.println(prop.getLowValue());
                }
                else{out.println(prop.getLowValue() + " TO " + prop.getHighValue());}
                if (!prop.getUnit().toString().equals("num")){
                  out.println(" " + prop.getUnit().toString());
                }
                out.println("</th>" ) ;
              }       

// here for the headers
              out.println("<tr>");
              for (XAxis x : d.getXAxes()){
                 out.println("<th>" + x.getHeader() + "</th>");
              }
              out.println("<th>" + y.getHeader() + "</th>");
              out.println("</tr>");
              
// finally the numbers themselves
              Double f = null;
              for (int ip=1 ; ip<=npoints; ip++){
                out.println("<tr>"); 
                for (int ix=1 ; ix<=nx; ix++){
                  XAxis xaxis = d.getXAxis(ix);
                  for (Bin b : xaxis.getBins()){
                    if(b.getId() == ip) {f = b.getFocus();}
                  }
                  out.println("<td>" + f + "</td>"); 
                }           
                try {
                  Point pt2 = y.getPoint(ip);
                  out.println("<td>" + pt2.getValue()); 
                  for ( Uncertainty e : pt2.getErrors() ){
                    if( e.getPlus().equals(e.getMinus()) ) {
                      out.println(" +- " + e.getPlus() );
                    }
                    else{
                      out.println(" +" + e.getPlus() + ",-" + e.getMinus() );
                    }
                    if ( e.getNormType() == ErrorNorm.PCT ) {
                      out.println(" (" + e.getNormType().toString() + ")");
                    }
                  }
                  out.println("</td>");
                } catch (Exception e) {
                  out.println("<td>-</td>");
                }
                out.println("</tr>");
              }
              out.println("</table>");
            }
        // to here
       }
    }
}

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