protected ActionForward performAction(
ActionMapping mapping,
ActionForm form,
HttpServletRequest request,
HttpServletResponse response)
throws Exception {
// The first job is to determine if we are coming to this action with an
// ID parameter in the request. If there is no parameter, we are
// creating a new Sample.
// If there is a parameter present, we should bring up an existing
// Sample to edit.
String forward = FWD_SUCCESS;
request.setAttribute(ALLOW_EDITS_KEY, "true");
String id = request.getParameter(ID);
if (StringUtil.isNullorNill(id) || "0".equals(id)) {
isNew = true;
} else {
isNew = false;
}
BaseActionForm dynaForm = (BaseActionForm) form;
// first get the accessionNumber and whether we are on blank page or not
String accessionNumber = (String) dynaForm.get("accessionNumber");
// bugzilla 2154
LogEvent.logDebug(
"HumanSampleTwoPopulateHashMapFromDE1Action",
"performAction()",
"accessionNumber coming in: " + accessionNumber);
String start = (String) request.getParameter("startingRecNo");
String typeOfSample = (String) dynaForm.get("typeOfSampleDesc");
String sourceOfSample = (String) dynaForm.get("sourceOfSampleDesc");
List typeOfSamples = new ArrayList();
List sourceOfSamples = new ArrayList();
if (dynaForm.get("typeOfSamples") != null) {
typeOfSamples = (List) dynaForm.get("typeOfSamples");
} else {
TypeOfSampleDAO typeOfSampleDAO = new TypeOfSampleDAOImpl();
typeOfSamples = typeOfSampleDAO.getAllTypeOfSamples();
}
if (dynaForm.get("sourceOfSamples") != null) {
sourceOfSamples = (List) dynaForm.get("sourceOfSamples");
} else {
SourceOfSampleDAO sourceOfSampleDAO = new SourceOfSampleDAOImpl();
sourceOfSamples = sourceOfSampleDAO.getAllSourceOfSamples();
}
HashMap humanSampleOneMap = new HashMap();
if (dynaForm.get("humanSampleOneMap") != null) {
humanSampleOneMap = (HashMap) dynaForm.get("humanSampleOneMap");
}
String projectIdOrName = (String) dynaForm.get("projectIdOrName");
String project2IdOrName = (String) dynaForm.get("project2IdOrName");
String projectNameOrId = (String) dynaForm.get("projectNameOrId");
String project2NameOrId = (String) dynaForm.get("project2NameOrId");
String projectId = null;
String project2Id = null;
if (projectIdOrName != null && projectNameOrId != null) {
try {
Integer i = Integer.valueOf(projectIdOrName);
projectId = projectIdOrName;
} catch (NumberFormatException nfe) {
// bugzilla 2154
LogEvent.logError(
"HumanSampleTwoPopulateHashMapFromDE1Action", "performAction()", nfe.toString());
projectId = projectNameOrId;
}
}
if (project2IdOrName != null && project2NameOrId != null) {
try {
Integer i = Integer.valueOf(project2IdOrName);
project2Id = project2IdOrName;
} catch (NumberFormatException nfe) {
// bugzilla 2154
LogEvent.logError(
"HumanSampleTwoPopulateHashMapFromDE1Action", "performAction()", nfe.toString());
project2Id = project2NameOrId;
}
}
// bugzilla 2154
LogEvent.logDebug(
"HumanSampleTwoPopulateHashMapFromDE1Action",
"performAction()",
"ProjectId is: " + projectId + " Project2Id is: " + project2Id);
// set current date for validation of dates
Date today = Calendar.getInstance().getTime();
Locale locale = (Locale) request.getSession().getAttribute("org.apache.struts.action.LOCALE");
String dateAsText = DateUtil.formatDateAsText(today, locale);
Patient patient = new Patient();
Person person = new Person();
Provider provider = new Provider();
Person providerPerson = new Person();
Sample sample = new Sample();
SampleHuman sampleHuman = new SampleHuman();
SampleOrganization sampleOrganization = new SampleOrganization();
List sampleProjects = new ArrayList();
List updatedSampleProjects = new ArrayList();
SampleItem sampleItem = new SampleItem();
// TODO need to populate this with tests entered in HSE I
List analyses = new ArrayList();
// tests are not handled in HSE II
/*
* String stringOfTestIds = (String) dynaForm.get("selectedTestIds");
*
* String[] listOfTestIds = stringOfTestIds.split(SystemConfiguration
* .getInstance().getDefaultIdSeparator(), -1);
*
* List analyses = new ArrayList(); for (int i = 0; i <
* listOfTestIds.length; i++) { if
* (!StringUtil.isNullorNill(listOfTestIds[i])) { Analysis analysis =
* new Analysis(); analysis.setTestId(listOfTestIds[i]); // TODO: need
* to populate this with actual data!!!
* analysis.setAnalysisType("TEST"); analyses.add(analysis); } }
*/
ActionMessages errors = null;
// validate on server-side sample accession number
try {
errors = new ActionMessages();
errors = validateAccessionNumber(request, errors, dynaForm);
// System.out.println("Just validated accessionNumber");
} catch (Exception e) {
// bugzilla 2154
LogEvent.logError(
"HumanSampleTwoPopulateHashMapFromDE1Action", "performAction()", e.toString());
ActionError error = new ActionError("errors.ValidationException", null, null);
errors.add(ActionMessages.GLOBAL_MESSAGE, error);
}
// System.out.println("This is errors after validation of accn Number "
// + errors);
if (errors != null && errors.size() > 0) {
saveErrors(request, errors);
// initialize the form but retain the invalid accessionNumber
dynaForm.initialize(mapping);
dynaForm.set("accessionNumber", accessionNumber);
// repopulate lists
PropertyUtils.setProperty(dynaForm, "typeOfSamples", typeOfSamples);
PropertyUtils.setProperty(dynaForm, "sourceOfSamples", sourceOfSamples);
request.setAttribute(ALLOW_EDITS_KEY, "false");
return mapping.findForward(FWD_FAIL);
}
// System.out.println("Now try to get data for accession number ");
try {
PatientDAO patientDAO = new PatientDAOImpl();
PersonDAO personDAO = new PersonDAOImpl();
ProviderDAO providerDAO = new ProviderDAOImpl();
SampleDAO sampleDAO = new SampleDAOImpl();
SampleItemDAO sampleItemDAO = new SampleItemDAOImpl();
SampleHumanDAO sampleHumanDAO = new SampleHumanDAOImpl();
SampleOrganizationDAO sampleOrganizationDAO = new SampleOrganizationDAOImpl();
AnalysisDAO analysisDAO = new AnalysisDAOImpl();
sample.setAccessionNumber(accessionNumber);
sampleDAO.getSampleByAccessionNumber(sample);
if (!StringUtil.isNullorNill(sample.getId())) {
sampleHuman.setSampleId(sample.getId());
sampleHumanDAO.getDataBySample(sampleHuman);
sampleOrganization.setSampleId(sample.getId());
sampleOrganizationDAO.getDataBySample(sampleOrganization);
// bugzilla 1773 need to store sample not sampleId for use in
// sorting
sampleItem.setSample(sample);
sampleItemDAO.getDataBySample(sampleItem);
patient.setId(sampleHuman.getPatientId());
patientDAO.getData(patient);
person = patient.getPerson();
personDAO.getData(person);
provider.setId(sampleHuman.getProviderId());
providerDAO.getData(provider);
providerPerson = provider.getPerson();
personDAO.getData(providerPerson);
// bugzilla 2227
analyses = analysisDAO.getMaxRevisionAnalysesBySample(sampleItem);
humanSampleOneMap =
populateHumanSampleOneMap(
patient,
person,
provider,
providerPerson,
sample,
sampleHuman,
sampleOrganization,
sampleItem,
analyses);
}
} catch (LIMSRuntimeException lre) {
// if error then forward to fail and don't update to blank page
// = false
// bugzilla 2154
LogEvent.logError(
"HumanSampleTwoPopulateHashMapFromDE1Action", "performAction()", lre.toString());
errors = new ActionMessages();
ActionError error = null;
if (lre.getException() instanceof org.hibernate.StaleObjectStateException) {
// how can I get popup instead of struts error at the top of
// page?
// ActionMessages errors = dynaForm.validate(mapping,
// request);
error = new ActionError("errors.OptimisticLockException", null, null);
// bugzilla 2154
LogEvent.logError(
"HumanSampleTwoPopulateHashMapFromDE1Action",
"performAction()",
"errors.OptimisticLockException");
} else {
error = new ActionError("errors.GetException", null, null);
// bugzilla 2154
LogEvent.logError(
"HumanSampleTwoPopulateHashMapFromDE1Action", "performAction()", "errors.GetException");
}
errors.add(ActionMessages.GLOBAL_MESSAGE, error);
saveErrors(request, errors);
request.setAttribute(Globals.ERROR_KEY, errors);
request.setAttribute(ALLOW_EDITS_KEY, "false");
return mapping.findForward(FWD_FAIL);
}
// initialize the form
dynaForm.initialize(mapping);
// set lastupdated fields
dynaForm.set("lastupdated", sample.getLastupdated());
dynaForm.set("personLastupdated", person.getLastupdated());
dynaForm.set("patientLastupdated", patient.getLastupdated());
dynaForm.set("providerPersonLastupdated", providerPerson.getLastupdated());
dynaForm.set("providerLastupdated", provider.getLastupdated());
dynaForm.set("sampleItemLastupdated", sampleItem.getLastupdated());
dynaForm.set("sampleHumanLastupdated", sampleHuman.getLastupdated());
dynaForm.set("sampleOrganizationLastupdated", sampleOrganization.getLastupdated());
if (updatedSampleProjects != null && updatedSampleProjects.size() > 0) {
if (updatedSampleProjects.size() == 1) {
SampleProject sp = (SampleProject) updatedSampleProjects.get(0);
dynaForm.set("sampleProject1Lastupdated", sp.getLastupdated());
// bugzilla 1857 deprecated stuff
// System.out.println("This is sp ts "
// + StringUtil.formatDateAsText(sp.getLastupdated(),
// SystemConfiguration.getInstance()
// .getDefaultLocale()));
}
if (updatedSampleProjects.size() == 2) {
SampleProject sp2 = (SampleProject) updatedSampleProjects.get(1);
dynaForm.set("sampleProject2Lastupdated", sp2.getLastupdated());
// bugzilla 1857 deprecated stuff
// System.out.println("This is sp2 ts "
// + StringUtil.formatDateAsText(sp2.getLastupdated(),
// SystemConfiguration.getInstance()
// .getDefaultLocale()));
}
}
if (dynaForm.get("sampleProject1Lastupdated") == null) {
PropertyUtils.setProperty(
form, "sampleProject1Lastupdated", new Timestamp(System.currentTimeMillis()));
}
if (dynaForm.get("sampleProject2Lastupdated") == null) {
PropertyUtils.setProperty(
form, "sampleProject2Lastupdated", new Timestamp(System.currentTimeMillis()));
}
PropertyUtils.setProperty(dynaForm, "currentDate", dateAsText);
PropertyUtils.setProperty(dynaForm, "accessionNumber", sample.getAccessionNumber());
// set receivedDate
PropertyUtils.setProperty(
dynaForm, "receivedDateForDisplay", (String) sample.getReceivedDateForDisplay());
PropertyUtils.setProperty(dynaForm, "typeOfSamples", typeOfSamples);
PropertyUtils.setProperty(dynaForm, "sourceOfSamples", sourceOfSamples);
PropertyUtils.setProperty(dynaForm, "humanSampleOneMap", humanSampleOneMap);
if ("true".equalsIgnoreCase(request.getParameter("close"))) {
forward = FWD_CLOSE;
}
if (sample.getId() != null && !sample.getId().equals("0")) {
request.setAttribute(ID, sample.getId());
}
if (forward.equals(FWD_SUCCESS)) {
request.setAttribute("menuDefinition", "default");
}
// bugzilla 2154
LogEvent.logDebug(
"HumanSampleTwoPopulateHashMapFromDE1Action",
"performAction()",
"forwarding to: " + forward);
// pdf - get accession number List
if (SystemConfiguration.getInstance().getEnabledSamplePdf().equals(YES)) {
String status =
SystemConfiguration.getInstance().getSampleStatusEntry1Complete(); // status = 2
String humanDomain = SystemConfiguration.getInstance().getHumanDomain();
UserTestSectionDAO userTestSectionDAO = new UserTestSectionDAOImpl();
List accessionNumberListTwo =
userTestSectionDAO.getSamplePdfList(request, locale, status, humanDomain);
PropertyUtils.setProperty(form, "accessionNumberListTwo", accessionNumberListTwo);
}
// return getForward(mapping.findForward(forward), id, start);
return mapping.findForward(forward);
}
