TestClient.java

//Example of Java Client for PDBe Soap Service using Apache Axis


/*
CLASSPATH=/scratch/jakarta-tomcat-4.1.12/webapps/axis/WEB-INF/lib/axis.jar:/scratch/jakarta-tomcat-4.1.12/webapps/axis/WEB-INF/lib/commons-discovery.jar:/scratch/jakarta-tomcat-4.1.12/webapps/axis/WEB-INF/lib/commons-logging.jar:/scratch/jakarta-tomcat-4.1.12/webapps/axis/WEB-INF/lib/jaxrpc.jar:/scratch/jakarta-tomcat-4.1.12/webapps/axis/WEB-INF/lib/log4j-1.2.4.jar:/scratch/jakarta-tomcat-4.1.12/webapps/axis/WEB-INF/lib/saaj.jar:/scratch/jakarta-tomcat-4.1.12/webapps/axis/WEB-INF/lib/wsdl4j.jar:/scratch/jakarta-tomcat-4.1.12/webapps/axis/WEB-INF/lib/xercesImpl.jar:/scratch/servlet/servlet.jar:/ebi/msd/work/jtate/xalan-j_2_4_0/bin/xalan.jar:/scratch/xml-axis-10/:/scratch/search1/search/search-server.jar


CLASSPATH /ebi/msd/work/siamak/jakarta-tomcat-4.1.12/webapps/axis/WEB-INF/lib/axis.jar:/ebi/msd/work/siamak/jakarta-tomcat-4.1.12/webapps/axis/WEB-INF/lib/commons-discovery.jar:/ebi/msd/work/siamak/jakarta-tomcat-4.1.12/webapps/axis/WEB-INF/lib/commons-logging.jar:/ebi/msd/work/siamak/jakarta-tomcat-4.1.12/webapps/axis/WEB-INF/lib/jaxrpc.jar:/ebi/msd/work/siamak/jakarta-tomcat-4.1.12/webapps/axis/WEB-INF/lib/log4j-1.2.4.jar:/ebi/msd/work/siamak/jakarta-tomcat-4.1.12/webapps/axis/WEB-INF/lib/saaj.jar:/ebi/msd/work/siamak/jakarta-tomcat-4.1.12/webapps/axis/WEB-INF/lib/wsdl4j.jar:/ebi/msd/work/siamak/jakarta-tomcat-4.1.12/webapps/axis/WEB-INF/lib/xerces.jar:/ebi/msd/work/siamak/msd_api/
*/
package msdsearch_soap_service_pkg;
import java.util.*;
import org.apache.axis.*;
import org.apache.axis.client.Call;
import org.apache.axis.client.Service;
import org.apache.axis.encoding.XMLType;
import org.apache.axis.utils.Options;
import org.apache.axis.soap.*;
import javax.xml.namespace.QName;
import org.apache.axis.wsdl.*;
import javax.xml.rpc.ParameterMode;

import org.apache.axis.message.SOAPBodyElement;
import org.apache.axis.utils.Options;
import org.apache.axis.utils.XMLUtils;
import org.w3c.dom.Element;
import org.w3c.dom.CDATASection;
import org.w3c.dom.Document; 
import javax.xml.parsers.DocumentBuilderFactory;
import javax.xml.parsers.DocumentBuilder;
import java.net.URL;
import java.util.Vector;
import org.apache.axis.message.*;

// get all the msd utilities (eg. Debug)
//import ebi.msd.utils.*;

public class TestClient
{
    public static void main(String [] args)
    {
        try {
 
           Options options = new Options(args);
            
           
            java.lang.String textToSend ="<fasta><evalue>1e-10</evalue><library>pdb</library><sequence>QLLAHLNKEQQEAVRTTEGPLLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITFTNKAAREMRERVQSLLGGAAEDVWISTFHSMCVRILRRDIDRIGINRNFSILDPTDQLSVMKTILKEKNIDPKKFEPRTILGTISAAKNELLPPEQFAKRASTYYEKVVSDVYQEYQQRLLRNHSLDFDDLIMTTIQLFDRVPDVLHYYQYKFQYIHIDEYQDTNRAQYTLVKKLAERFQNICAVGDADQSIYRWRGADIQNILSFERDYPNAKVILLEQNYRSTKRILQAANEVIEHNVNRKPKRIWTENPEGKPILYYEAMNEADEAQFVAGRIREAVERGERRYRDFAVLYRTNAQSRVMEEMLLKANIPYQIVGGLKFYDRKEIKDILAYLRVIANPDDDLSLLRIINVPKRGIGASTIDKLVRYAADHELSLFEALGELEMIGLGAKAAGALAAFRSQLEQWTQLQEYVSVTELVEEVLDKSGYREMLKAERTIEAQSRLENLDEFLSVTKHFENVSDDKSLIAFLTDLALISDLDELD</sequence></fasta>";
        java.lang.String endpointURL = "http://www.ebi.ac.uk/msd-srv/ssm/cgi-bin/ws/msdsearch_soap_service.cgi";
            //~~~~~String endpointURL = "http://parrot.ebi.ac.uk:8099/cgi-bin/msd_soap_service.cgi?33333";
                
                long before = System.currentTimeMillis();
            
            Service  service = new Service();
            Call     call    = (Call) service.createCall();
            //Call     call    = new Call();
            //call.setProperty("ENCODING_STYLE_PROPERTY",Constants.NS_PREFIX_SOAP_ENC);
            call.setTargetEndpointAddress( new java.net.URL(endpointURL) );
            //
            
            //Vector params =new Vector();
            //call.addParameter( "sessionID", XMLType.XSD_STRING, ParameterMode.IN );
            //call.addParameter( "query",XMLType.XSD_STRING, ParameterMode.IN );
            
                call.addParameter( "numofpars", XMLType.XSD_INT, ParameterMode.IN );
            call.addParameter( "inparams",XMLType.XSD_ANYTYPE, ParameterMode.IN );
            
                //call.addParameter( "name", XMLType.XSD_STRING, ParameterMode.IN );
                call.addParameter( "result",XMLType.XSD_INT,ParameterMode.OUT);
            call.setReturnType( org.apache.axis.encoding.XMLType.XSD_INT);
            
                call.setEncodingStyle("http://schemas.xmlsoap.org/soap/encoding/");
            
                java.lang.String [] input = new java.lang.String[2];
            input[1]="M553133264911";
            input[0]=textToSend;
            java.lang.Integer numParam = new java.lang.Integer(input.length);
        java.lang.Integer outParam=new java.lang.Integer(33);
                //String  name = "MyObject";
            // call.setOperationName( new QName("QueryServer","setQuery"));
            //call.setOperationName( "setQuery");
            
                call.setOperationName("msdFasta");
        //call.setOperationName( "msd-create-connect-obj");

            //call.setOperationName( "getStatus");
            java.lang.Integer rety=(java.lang.Integer)call.invoke(new java.lang.Object[]{numParam,input});
                //Integer rety=(Integer)call.invoke(new Object[]{name});
            //Integer rety= (Integer)call.invoke(new Object[]{numParam,input});
            //SOAPEnvelope soap = (SOAPEnvelope) call.invoke(new Object[]{numParam,input});
            //Object o = call.invoke(new Object[]{numParam,input});
            //o.toString();
            //SOAPBodyElement elem  = null ;
            //Element         e     = null ;

            //elem = (SOAPBodyElement) elems.get(0);
            //e    = elem.getAsDOM();
            //String str = "soap =" + XMLUtils.ElementToString(soap.getFirstBody().getAsDOM());
            //System.out.println(str);
            //System.out.println("You typed : " +rety.toString());
            //String rety=(String)call.invoke(new Object[]{session});
            
            System.out.println("You typed : " + rety);
                        System.out.println("\nOutput : " + outParam);

            long after = System.currentTimeMillis();
            
            long time = after-before;
            System.out.println("time taken = "+ time);
            
        } catch (Exception e) {
            System.err.println(e.toString());
            e.printStackTrace();
        }
    }
}

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