edu.harvard.i2b2.crc.delegate.pdo.GetPDOTemplateHandler.java Source code

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Here is the source code for edu.harvard.i2b2.crc.delegate.pdo.GetPDOTemplateHandler.java

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/*
 * Copyright (c) 2006-2007 Massachusetts General Hospital 
 * All rights reserved. This program and the accompanying materials 
 * are made available under the terms of the i2b2 Software License v1.0 
 * which accompanies this distribution. 
 * 
 * Contributors: 
 *     Rajesh Kuttan
 */
package edu.harvard.i2b2.crc.delegate.pdo;

import java.io.BufferedReader;
import java.io.IOException;
import java.io.InputStream;
import java.io.InputStreamReader;
import java.util.List;

import javax.xml.bind.JAXBElement;

import org.apache.commons.logging.Log;
import org.apache.commons.logging.LogFactory;

import edu.harvard.i2b2.common.exception.I2B2Exception;
import edu.harvard.i2b2.common.util.ServiceLocatorException;
import edu.harvard.i2b2.common.util.jaxb.JAXBUtilException;
import edu.harvard.i2b2.crc.dao.pdo.MetaDataTypeMapper;
import edu.harvard.i2b2.crc.datavo.CRCJAXBUtil;
import edu.harvard.i2b2.crc.datavo.i2b2message.BodyType;
import edu.harvard.i2b2.crc.datavo.pdo.ParamType;
import edu.harvard.i2b2.crc.datavo.pdo.PatientDataType;
import edu.harvard.i2b2.crc.datavo.pdo.query.GetPDOTemplateRequestType;
import edu.harvard.i2b2.crc.datavo.pdo.query.PatientDataResponseType;
import edu.harvard.i2b2.crc.delegate.RequestHandler;
import edu.harvard.i2b2.crc.ejb.PdoQueryBean;
import edu.harvard.i2b2.crc.util.QueryProcessorUtil;

/**
 * GetPDOFromInputListHandler class. $Id: GetPDOFromInputListHandler.java,v 1.10
 * 2008/07/21 19:56:56 rk903 Exp $
 * 
 * @author rkuttan
 */
public class GetPDOTemplateHandler extends RequestHandler {
    private GetPDOTemplateRequestType getPDOTemplateRequestType = null;
    /** log **/
    protected final Log log = LogFactory.getLog(getClass());

    /**
     * Constuctor which accepts i2b2 request message xml
     * 
     * @param requestXml
     * @throws I2B2Exception
     */
    public GetPDOTemplateHandler(String requestXml) throws I2B2Exception {
        try {
            getPDOTemplateRequestType = (GetPDOTemplateRequestType) this.getRequestType(requestXml,
                    edu.harvard.i2b2.crc.datavo.pdo.query.GetPDOTemplateRequestType.class);
            setDataSourceLookup(requestXml);
        } catch (JAXBUtilException jaxbUtilEx) {
            throw new I2B2Exception("Error ", jaxbUtilEx);
        }
    }

    /**
     * Perform operation for the given request using business class(ejb) and
     * return response
     */
    public BodyType execute() throws I2B2Exception {
        // call ejb and pass input object
        QueryProcessorUtil qpUtil = QueryProcessorUtil.getInstance();
        String responseString = null;
        BodyType bodyType = new BodyType();

        try {
            InputStream resourceAsStream = getClass().getResourceAsStream("pdo_template.xml");
            //.getContextClassLoader().getResourceAsStream(
            //      "pdo_template.xml");

            if (resourceAsStream == null) {
                log.debug("Unable to read pdo_template.xml, the inputstream is null");
            } else {
                log.debug("pdo_template.xml, the inputstream is not null");
            }
            // .currentThread()
            // .getContextClassLoader()
            // .getResourceAsStream(
            // );
            String pdoXmlContent = convertStreamToString(resourceAsStream);
            JAXBElement pdoJaxb = null;

            pdoJaxb = CRCJAXBUtil.getJAXBUtil().unMashallFromString(pdoXmlContent);

            PatientDataType patientDataType = (PatientDataType) pdoJaxb.getValue();

            //TODO removed EJBs
            //PdoQueryLocalHome pdoQueryLocalHome = qpUtil.getPdoQueryLocalHome();
            //PdoQueryLocal pdoQueryInfoLocal = pdoQueryLocalHome.create();
            PdoQueryBean query = new PdoQueryBean();
            List<ParamType> patientParamList = query.getPDOTemplate("patient_dimension", this.getDataSourceLookup(),
                    false);
            patientDataType.getPatientSet().getPatient().get(0).getParam().clear();
            patientDataType.getPatientSet().getPatient().get(0).getParam().addAll(patientParamList);

            List<ParamType> visitParamList = query.getPDOTemplate("visit_dimension", this.getDataSourceLookup(),
                    false);
            patientDataType.getEventSet().getEvent().get(0).getParam().clear();
            patientDataType.getEventSet().getEvent().get(0).getParam().addAll(visitParamList);

            PatientDataResponseType patientDataResponseType = new PatientDataResponseType();
            patientDataResponseType.setPatientData(patientDataType);
            edu.harvard.i2b2.crc.datavo.pdo.query.ObjectFactory objectFactory = new edu.harvard.i2b2.crc.datavo.pdo.query.ObjectFactory();

            bodyType.getAny().add(objectFactory.createResponse(patientDataResponseType));

        } catch (JAXBUtilException e) {
            log.error("", e);
            throw new I2B2Exception("", e);
        } catch (Exception e) {
            log.error("", e);
            throw new I2B2Exception("", e);
        }
        return bodyType;
    }

    private String convertStreamToString(InputStream is) {

        BufferedReader reader = new BufferedReader(new InputStreamReader(is));
        StringBuilder sb = new StringBuilder();

        String line = null;
        try {
            while ((line = reader.readLine()) != null) {
                sb.append(line + "\n");
            }
        } catch (IOException e) {
            e.printStackTrace();
        } finally {
            try {
                is.close();
            } catch (IOException e) {
                e.printStackTrace();
            }
        }

        return sb.toString();
    }

}