/**
* Handles the user's request to update their experiment.
*
* @param command SequencerRun command object
* @param request a {@link javax.servlet.http.HttpServletRequest} object.
* @param response a {@link javax.servlet.http.HttpServletResponse} object.
* @return a {@link org.springframework.web.servlet.ModelAndView} object.
* @throws java.lang.Exception if any.
*/
public ModelAndView handleUpdate(
HttpServletRequest request, HttpServletResponse response, SequencerRun command)
throws Exception {
Registration registration = Security.getRegistration(request);
if (registration == null) return new ModelAndView("redirect:/login.htm");
ModelAndView modelAndView = null;
BindingResult errors = this.validateSequencerRun(request, command);
if (errors.hasErrors()) {
Map model = errors.getModel();
modelAndView = new ModelAndView("SequencerRunUpdate", model);
} else {
SequencerRun newSequencerRun = command;
SequencerRun oldSequencerRun = getCurrentSequencerRun(request);
if (newSequencerRun != null && oldSequencerRun != null) {
new ServletRequestDataBinder(oldSequencerRun).bind(request);
getSequencerRunService().update(oldSequencerRun);
modelAndView = new ModelAndView("redirect:/sequencerRunList.htm");
} else {
modelAndView = new ModelAndView("redirect:/Error.htm");
}
}
request.getSession(false).removeAttribute("sequencerRun");
return modelAndView;
}
/** {@inheritDoc} */
@Override
protected ModelAndView handleRequestInternal(
HttpServletRequest request, HttpServletResponse response) throws Exception {
// TODO Auto-generated method stub
Registration registration = Security.getRegistration(request);
if (registration == null) return new ModelAndView("redirect:/login.htm");
ModelAndView modelAndView = new ModelAndView("Search");
modelAndView.addObject("types", getTypes());
String checked = getChecked(request);
if ("true".equals(checked)) {
modelAndView.addObject("checked", "checked=\"yes\"");
} else {
modelAndView.addObject("checked", "");
}
return modelAndView;
}
/**
* {@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");
WorkflowRun workflowRun = getRequestedWorkflowRun(request);
if (workflowRun != null) {
Integer ownerId = workflowRun.getOwner().getRegistrationId();
Integer registrationId = registration.getRegistrationId();
if (registrationId.equals(ownerId)) {
if (workflowRun.getStatus() != WorkflowRunStatus.completed) {
workflowRun.setStatus(WorkflowRunStatus.cancelled);
getWorkflowRunService().update(workflowRun);
}
}
}
return null;
}
/**
* Handles the user's request to submit a new experiment.
*
* @param request HttpServletRequest
* @param response HttpServletResponse
* @param command SequencerRun command object
* @return ModelAndView
* @throws java.lang.Exception if any.
*/
public ModelAndView handleSubmit(
HttpServletRequest request, HttpServletResponse response, SequencerRun command)
throws Exception {
Registration registration = Security.getRegistration(request);
if (registration == null) return new ModelAndView("redirect:/login.htm");
ModelAndView modelAndView = null;
BindingResult errors = this.validateSequencerRun(request, command);
if (errors.hasErrors()) {
Map model = errors.getModel();
modelAndView = new ModelAndView("SequencerRun1", model);
} else {
Debug.put("HERE!!!!!!!!!!!!!!!!!!!!!!!!!!!!!1");
getSequencerRunService().insert(command);
// command.setOwnerId(registration.getRegistrationId());
modelAndView = new ModelAndView("redirect:/sequencerRunList.htm");
}
request.getSession(false).removeAttribute("sequencerRun");
return modelAndView;
}
/**
* Handles the user's request to submit a new study.
*
* @param request HttpServletRequest
* @param response HttpServletResponse
* @param command Study command object
* @return ModelAndView
* @throws java.lang.Exception if any.
*/
public ModelAndView handleSubmit(
HttpServletRequest request, HttpServletResponse response, UploadFile command)
throws Exception {
Registration registration = Security.getRegistration(request);
if (registration == null) return new ModelAndView("redirect:/login.htm");
ServletContext context = this.getServletContext();
command.setFolderStore(context.getInitParameter("path.to.upload.directory"));
command.setStrStartURL(context.getInitParameter("true.protocols"));
ModelAndView modelAndView = null;
BindingResult errors = this.validate(request, command);
if (errors.hasErrors()) {
Map model = errors.getModel();
Integer id = getRequestedId(request);
String typeNode = getRequestedTypeNode(request);
String nameNode = getNameNode(id, typeNode);
List<FileType> listFileType = getFileTypeService().list();
model.put("id", id);
model.put("tn", typeNode);
model.put("nameNode", nameNode);
model.put("listFileType", listFileType);
modelAndView = new ModelAndView("UploadFile", model);
} else {
String folderStore = context.getInitParameter("path.to.upload.directory");
// MultipartFile file = command.getFile();
// MultipartFile file = command.getFileFromURL();
Log.info("URL = " + command.getFileURL());
Log.info("USE URL ? = " + command.getUseURL());
FileType fileType = getFileTypeService().findByID(command.getFileTypeId());
Integer id = getRequestedId(request);
String typeNode = getRequestedTypeNode(request);
Log.info("ID = " + id);
Log.info("typeNode = " + typeNode);
if ("st".equals(typeNode)) {
Study study = getStudyService().findByID(id);
getFileUploadService().uploadFile(study, command, fileType, registration);
}
if ("exp".equals(typeNode)) {
Experiment experiment = getExperimentService().findByID(id);
getFileUploadService().uploadFile(experiment, command, fileType, registration);
}
if ("sam".equals(typeNode)) {
Sample sample = getSampleService().findByID(id);
getFileUploadService().uploadFile(sample, command, fileType, registration);
}
if ("seq".equals(typeNode)) {
Lane lane = getLaneService().findByID(id);
getFileUploadService().uploadFile(lane, command, fileType, registration);
}
if ("ius".equals(typeNode)) {
IUS ius = getIUSService().findByID(id);
getFileUploadService().uploadFile(ius, command, fileType, registration);
}
if ("ae".equals(typeNode)) {
Processing processing = getProcessingService().findByID(id);
getFileUploadService().uploadFile(processing, command, fileType, registration);
}
if ("sr".equals(typeNode)) {
SequencerRun sequencerRun = getSequencerRunService().findByID(id);
getFileUploadService().uploadFile(sequencerRun, command, fileType, registration);
}
modelAndView = new ModelAndView(getViewName(request));
}
return modelAndView;
}