package net.sourceforge.solexatools.webapp.controller;
import java.util.ArrayList;
import java.util.HashMap;
import java.util.List;
import java.util.Map;
import javax.servlet.http.HttpServletRequest;
import javax.servlet.http.HttpServletResponse;
import net.sourceforge.seqware.common.business.LaneService;
import net.sourceforge.seqware.common.business.ProcessingService;
import net.sourceforge.seqware.common.business.SampleService;
import net.sourceforge.seqware.common.business.WorkflowRunService;
import net.sourceforge.seqware.common.model.Lane;
import net.sourceforge.seqware.common.model.Processing;
import net.sourceforge.seqware.common.model.Registration;
import net.sourceforge.seqware.common.model.Sample;
import net.sourceforge.seqware.common.model.WorkflowRun;
import net.sourceforge.solexatools.Security;
import net.sourceforge.solexatools.util.BulkUtil;
import net.sourceforge.solexatools.util.Constant;
import net.sourceforge.solexatools.util.PageInfo;
import net.sourceforge.solexatools.util.PaginationUtil;
import org.springframework.context.support.MessageSourceAccessor;
import org.springframework.web.servlet.ModelAndView;
import org.springframework.web.servlet.mvc.BaseCommandController;
/**
* <p>
* AnalisysBulkDownloadListDetailsController class.
* </p>
*
* @author boconnor
* @version $Id: $Id
*/
public class AnalisysBulkDownloadListDetailsController extends BaseCommandController {
private WorkflowRunService workflowRunService;
private SampleService sampleService;
private LaneService laneService;
private ProcessingService processingService;
/**
* <p>
* Constructor for AnalisysBulkDownloadListDetailsController.
* </p>
*/
public AnalisysBulkDownloadListDetailsController() {
super();
setSupportedMethods(new String[] { METHOD_GET });
}
private Boolean getRequestedAsc(HttpServletRequest request) {
Boolean isAsc = null;
String strAsc = request.getParameter("asc");
if (null != strAsc) switch (strAsc) {
case "true":
isAsc = true;
break;
case "false":
isAsc = false;
break;
}
return isAsc;
}
private Boolean saveAscInSession(HttpServletRequest request, String attrNameInSession) {
Boolean isAsc = getRequestedAsc(request);
if (isAsc != null) {
request.getSession(false).setAttribute(attrNameInSession, isAsc);
}
return isAsc(request, attrNameInSession);
}
private Boolean isAsc(HttpServletRequest request, String attrNameInSession) {
Boolean isAsc = (Boolean) request.getSession(false).getAttribute(attrNameInSession);
if (isAsc == null) {
isAsc = true;
}
return isAsc;
}
/**
* {@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");
return new ModelAndView("AnalisysListRoot");
}
/**
* Pass registration so that we can filter the list if its appropriate to do so.
*/
List<String> selectedIds = (List<String>) request.getSession(false).getAttribute("analysisSelectedNodes");
WorkflowRun wfrs = new WorkflowRun();
Sample sam = new Sample();
Lane lane = new Lane();
Processing proc = new Processing();
Map<WorkflowRun, List<Processing>> wfrProc = new HashMap<>();
PageInfo pageInfo = null;
Boolean isHasError = false;
String errorMessage = "";
List<WorkflowRun> listAll = new ArrayList<>();
List<WorkflowRun> listView = new ArrayList<>();
String root = (String) request.getParameter("root");
System.err.println("ROOT: " + root);
if (root == null || "".equals(root) || "source".equals(root)) {
MessageSourceAccessor ma = this.getMessageSourceAccessor();
String nameOneItem = "analysis.list.pagination.nameOneItem";
String nameLotOfItem = "analysis.list.pagination.nameLotOfItem";
String typeList = getRequestedTypeList(request);
if (typeList.equals("mylist")) {
Boolean isAsc = saveAscInSession(request, "ascBulkDownloadMyListAnalysis");
listAll = getWorkflowRunService().list(registration, isAsc);
// list = getWorkflowRunService().listRoot(registration);
// list = getWorkflowRunService().listRootWithSample(registration);
listView = PaginationUtil.subList(request, "myAnalisysBulkDownloadPage", listAll);
pageInfo = PaginationUtil.getPageInfo(request, "myAnalisysBulkDownloadPage", listView, listAll, nameOneItem, nameLotOfItem,
ma);
// set error if user dont owned Workflow Run
if (listAll.isEmpty()) {
isHasError = true;
errorMessage = this.getMessageSourceAccessor().getMessage("analysis.list.required.one.item");
}
}
if (typeList.equals("bymesharelist")) {
// list = getWorkflowService().listSharedWithMe(registration);
// list = getWorkflowRunService().listSharedWithMe(registration);
Boolean isAsc = saveAscInSession(request, "ascBulkDownloadSharedWithMeListAnalysis");
// listAll = getWorkflowRunService().listSharedWithMeWithSample(registration, isAsc);
listAll = getWorkflowRunService().listSharedWithMe(registration, isAsc);
listView = PaginationUtil.subList(request, "analisysBulkDownloadSharedWithMe", listAll);
pageInfo = PaginationUtil.getPageInfo(request, "myAnalisysBulkDownloadPage", listView, listAll, nameOneItem, nameLotOfItem,
ma);
}
BulkUtil.selectWorkflowRunNode(selectedIds, listView);
listView = getWorkflowRunService().listWithHasFile(listView);
} else {
if (root.indexOf("ae_") != -1) {
proc = getProcessingService().findByID(Constant.getId(root));
BulkUtil.selectProcessingNode(selectedIds, proc);
getProcessingService().setWithHasFile(proc.getChildren());
fillWorkflowProcessingMap(proc, wfrProc);
} else if (root.indexOf("wfrs_") != -1) {
wfrs = getWorkflowRunService().findByIDWithIUS(Constant.getId(root));
} else
/*
* if(root.indexOf("sam_") != -1){ // Integer samID = Integer.parseInt(root.substring(root.lastIndexOf("_") + 1,
* root.length())); sam = getSampleService().findByID(Constant.getId(root)); }else
*/
{
// WorkflowRun s = getWorkflowRunService().findByID(Integer.parseInt(root));
WorkflowRun wfr = getWorkflowRunService().findByIDWithIUS(Integer.parseInt(root));
// list = new ArrayList<WorkflowRun>();
listView.add(wfr);
BulkUtil.selectProcessingNode(selectedIds, wfr);
getProcessingService().setWithHasFile(wfr.getProcessings());
/*
* Log.info("PROCS:"); SortedSet<Processing> procs = s.getProcessings(); Iterator<Processing> it = procs.iterator(); while
* (it.hasNext()) { Processing processing = (Processing) it.next(); Log.info("ID=" + processing.getProcessingId()); }
*/
}
}
request.getSession(false).setAttribute("analysisSelectedNodes", selectedIds);
// System.err.println("Workflow length: "+listAll.size());
ModelAndView modelAndView;
if (root.indexOf("ae_") != -1) {
System.err.println("RENDERING INDIVIDUAL File with Processing");
modelAndView = new ModelAndView("StudyListFileProcessing");
modelAndView.addObject("root", root);
modelAndView.addObject("wfrproc", wfrProc);
modelAndView.addObject("wfrprockeys", wfrProc.keySet());
} else if (root.indexOf("wfrs_") != -1) {
System.err.println("RENDERING INDIVIDUAL WorkflowRun with IUS");
modelAndView = new ModelAndView("AnalisysListIUS");
} else
/*
* if(root.indexOf("sam_") != -1){ System.err.println("RENDERING INDIVIDUAL Sample"); modelAndView = new
* ModelAndView("AnalisysListLane"); modelAndView.addObject("root", root); }else
*/
if (root != null && !"".equals(root) && !"source".equals(root) && Integer.parseInt(root) > 0) {
System.err.println("RENDERING INDIVIDUAL WorkflowRun");
modelAndView = new ModelAndView("AnalisysListDetails");
modelAndView.addObject("root", root);
} else {
System.err.println("RENDERING ALL WORKFLOWRUNS");
modelAndView = new ModelAndView("AnalisysListRoot");
modelAndView.addObject("pageInfo", pageInfo);
}
// set error data
modelAndView.addObject("isHasError", isHasError);
modelAndView.addObject("errorMessage", errorMessage);
modelAndView.addObject("isBulkPage", true);
modelAndView.addObject("workflowRuns", listView);
modelAndView.addObject("registration", registration);
modelAndView.addObject("workflowRun", wfrs);
modelAndView.addObject("sample", sam);
modelAndView.addObject("lane", lane);
modelAndView.addObject("processing", proc);
modelAndView.addObject("typeList", "tree");
return modelAndView;
}
private void fillWorkflowProcessingMap(Processing proc, Map<WorkflowRun, List<Processing>> wfrProc) {
for (Processing child : proc.getChildren()) {
List<Processing> processings = wfrProc.get(child.getWorkflowRun());
if (processings == null) {
processings = new ArrayList<>();
}
processings.add(child);
if (child.getWorkflowRun() != null) {
wfrProc.put(child.getWorkflowRun(), processings);
}
}
}
private String getRequestedTypeList(HttpServletRequest request) {
String typeList = (String) request.getParameter("typeList");
if (typeList == null) {
typeList = "";
}
return typeList;
}
/**
* <p>
* Getter for the field <code>workflowRunService</code>.
* </p>
*
* @return a {@link net.sourceforge.seqware.common.business.WorkflowRunService} object.
*/
public WorkflowRunService getWorkflowRunService() {
return workflowRunService;
}
/**
* <p>
* Setter for the field <code>workflowRunService</code>.
* </p>
*
* @param workflowRunService
* a {@link net.sourceforge.seqware.common.business.WorkflowRunService} object.
*/
public void setWorkflowRunService(WorkflowRunService workflowRunService) {
this.workflowRunService = workflowRunService;
}
/**
* <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>processingService</code>.
* </p>
*
* @return a {@link net.sourceforge.seqware.common.business.ProcessingService} object.
*/
public ProcessingService getProcessingService() {
return processingService;
}
/**
* <p>
* Setter for the field <code>processingService</code>.
* </p>
*
* @param processingService
* a {@link net.sourceforge.seqware.common.business.ProcessingService} object.
*/
public void setProcessingService(ProcessingService processingService) {
this.processingService = processingService;
}
}