LaneSampleAssociateController.java

package net.sourceforge.solexatools.webapp.controller; // -*- tab-width: 4 -*-

import java.util.HashMap;

import javax.servlet.http.HttpServletRequest;
import javax.servlet.http.HttpServletResponse;
import javax.servlet.http.HttpSession;

import net.sourceforge.seqware.common.business.IUSService;
import net.sourceforge.seqware.common.business.LaneService;
import net.sourceforge.seqware.common.business.SampleService;
import net.sourceforge.seqware.common.model.IUS;
import net.sourceforge.seqware.common.model.Lane;
import net.sourceforge.seqware.common.model.Registration;
import net.sourceforge.seqware.common.model.Sample;
import net.sourceforge.solexatools.Security;

import org.springframework.web.servlet.ModelAndView;
import org.springframework.web.servlet.mvc.BaseCommandController;

/**
 * RegistrationSetupController This is invoked upon entry to Registration.jsp or RegistrationUpdate.jsp
 * 
 * @author boconnor
 * @version $Id: $Id
 */
public class LaneSampleAssociateController extends BaseCommandController {

    SampleService sampleService = null;
    LaneService laneService = null;
    IUSService iusService = null;

    /**
     * <p>
     * Constructor for LaneSampleAssociateController.
     * </p>
     */
    public LaneSampleAssociateController() {
        super();
        setSupportedMethods(new String[] { METHOD_GET, METHOD_POST });
    }

    /**
     * {@inheritDoc}
     * 
     * @return
     * @throws java.lang.Exception
     */
    @Override
    protected ModelAndView handleRequestInternal(HttpServletRequest request, HttpServletResponse response) throws Exception {

        Registration registration = Security.getRegistration(request);
        if (registration == null) return new ModelAndView("redirect:/login.htm");

        ModelAndView modelAndView = null;
        HashMap<String, Object> model = new HashMap<>();
        Lane lane = getRequestedLane(request);
        Sample sample = getRequestedSample(request);

        if (lane != null && sample != null) {

            lane.setSample(sample);
            // only set the lane's owner to sample owner if this lane has no tags/barcodes
            if (sample.getTags() == null || sample.getTags().length() == 0) lane.setOwner(sample.getOwner());
            laneService.update(lane);
            // create an IUS for each tag
            if (sample.getTags() != null) {
                String[] tags = sample.getTags().split(",");
                for (String tag : tags) {
                    IUS ius = new IUS();
                    ius.setLane(lane);
                    ius.setSample(sample);
                    ius.setTag(tag);
                    ius.setName("ius_" + tag + "_from_" + lane.getName());
                    ius.setOwner(sample.getOwner());
                    iusService.insert(ius);
                }
            } else { // otherwise just create one IUS per Sample/Lane combo
                IUS ius = new IUS();
                ius.setLane(lane);
                ius.setSample(sample);
                ius.setName("ius_from_" + lane.getName());
                ius.setOwner(sample.getOwner());
                iusService.insert(ius);
            }

            return new ModelAndView("redirect:/sequencerRunWizardEdit.htm?sequencerRunId="
                    + (String) request.getParameter("sequencerRunId"));
        } else {
            return new ModelAndView("redirect:/Error.htm");
        }
    }

    private Lane getRequestedLane(HttpServletRequest request) {
        Lane lane = null;
        HttpSession session = request.getSession(false);
        String id = (String) request.getParameter("laneId");
        if (id != null && !"".equals(id)) {
            lane = laneService.findByID(Integer.parseInt(id));
        }
        return (lane);
    }

    private Sample getRequestedSample(HttpServletRequest request) {
        Sample sample = null;
        HttpSession session = request.getSession(false);
        String id = (String) request.getParameter("sampleId");
        if (id != null && !"".equals(id)) {
            sample = sampleService.findByID(Integer.parseInt(id));
        }
        return (sample);
    }

    /**
     * <p>
     * Getter for the field <code>sampleService</code>.
     * </p>
     * 
     * @return a {@link net.sourceforge.seqware.common.business.SampleService} object.
     */
    public SampleService getSampleService() {
        return sampleService;
    }

    /**
     * <p>
     * Setter for the field <code>sampleService</code>.
     * </p>
     * 
     * @param sampleService
     *            a {@link net.sourceforge.seqware.common.business.SampleService} object.
     */
    public void setSampleService(SampleService sampleService) {
        this.sampleService = sampleService;
    }

    /**
     * <p>
     * Getter for the field <code>laneService</code>.
     * </p>
     * 
     * @return a {@link net.sourceforge.seqware.common.business.LaneService} object.
     */
    public LaneService getLaneService() {
        return laneService;
    }

    /**
     * <p>
     * Setter for the field <code>laneService</code>.
     * </p>
     * 
     * @param laneService
     *            a {@link net.sourceforge.seqware.common.business.LaneService} object.
     */
    public void setLaneService(LaneService laneService) {
        this.laneService = laneService;
    }

    /**
     * <p>
     * Getter for the field <code>iusService</code>.
     * </p>
     * 
     * @return a {@link net.sourceforge.seqware.common.business.IUSService} object.
     */
    public IUSService getIusService() {
        return iusService;
    }

    /**
     * <p>
     * Setter for the field <code>iusService</code>.
     * </p>
     * 
     * @param iusService
     *            a {@link net.sourceforge.seqware.common.business.IUSService} object.
     */
    public void setIusService(IUSService iusService) {
        this.iusService = iusService;
    }

    /**
     * <p>
     * getIUSService.
     * </p>
     * 
     * @return a {@link net.sourceforge.seqware.common.business.IUSService} object.
     */
    public IUSService getIUSService() {
        return iusService;
    }

    /**
     * <p>
     * setIUSService.
     * </p>
     * 
     * @param iusService
     *            a {@link net.sourceforge.seqware.common.business.IUSService} object.
     */
    public void setIUSService(IUSService iusService) {
        this.iusService = iusService;
    }

}