@SuppressWarnings("unchecked")
public Object getValue(Object item, String property, int rowcount) {
String value = "";
Status status = (Status) ((HashMap<Object, Object>) item).get("subject.status");
if (status != null) {
value = status.getName();
}
return value;
}
public String showRow(EntityBean e) {
FilterBean fb = (FilterBean) e;
Status s = fb.getStatus();
// do the first row, just the "flat" properties
String row = "<tr>\n";
// filter name
String colorOn = s.equals(Status.AVAILABLE) ? "" : "<font color='gray'>";
String colorOff = s.equals(Status.AVAILABLE) ? "" : "</font>";
row += "<td>" + colorOn + fb.getName() + colorOff + "</td>\n";
row += "<td>" + fb.getDescription() + "</td>\n";
row += "<td>" + fb.getOwner().getName() + "</td>\n";
// created date
row += "<td>" + fb.getCreatedDate().toString() + "</td>\n";
// status
row += "<td>" + s.getName() + "</td>\n";
// actions
row += "<td>";
if (!s.equals(Status.DELETED)) {
String confirmQuestion = "Are you sure you want to delete " + fb.getName() + "?";
String onClick = "onClick=\"return confirm('" + confirmQuestion + "');\"";
row += "<a href='" + ApplyFilterServlet.getLink(fb.getId()) + "'>view</a>";
row += " <a href='" + EditFilterServlet.getLink(fb.getId()) + "'>edit</a>";
row += " <a href='" + RemoveFilterServlet.getLink(fb.getId()) + "'" + onClick + ">delete</a>";
} else {
// write the servlet to restore filters later, tbh 01-23-2005
/*String confirmQuestion = "Are you sure you want to restore " + u.getName() + "?";
String onClick = "onClick=\"return confirm('" + confirmQuestion + "');\"";
row += " <a href='" + DeleteUserServlet.getLink(u, EntityAction.RESTORE) + "'" + onClick + ">restore</a>";
*/
}
row += "</td>\n";
row += "</tr>\n";
row += "<tr>\n";
row += "</tr>\n";
return row;
}
@Override
public void processRequest() throws Exception {
resetPanel();
panel.setStudyInfoShown(false);
panel.setOrderedData(true);
FormProcessor fp = new FormProcessor(request);
// checks which module the requests are from
String module = fp.getString(MODULE);
// keep the module in the session
session.setAttribute(MODULE, module);
String action = request.getParameter("action");
CRFVersionBean version = (CRFVersionBean) session.getAttribute("version");
File xsdFile = new File(SpringServletAccess.getPropertiesDir(context) + "ODM1-3-0.xsd");
File xsdFile2 = new File(SpringServletAccess.getPropertiesDir(context) + "ODM1-2-1.xsd");
if (StringUtil.isBlank(action)) {
logger.info("action is blank");
request.setAttribute("version", version);
forwardPage(Page.IMPORT_CRF_DATA);
}
if ("confirm".equalsIgnoreCase(action)) {
String dir = SQLInitServlet.getField("filePath");
if (!(new File(dir)).exists()) {
logger.info("The filePath in datainfo.properties is invalid " + dir);
addPageMessage(respage.getString("filepath_you_defined_not_seem_valid"));
forwardPage(Page.IMPORT_CRF_DATA);
}
// All the uploaded files will be saved in filePath/crf/original/
String theDir = dir + "crf" + File.separator + "original" + File.separator;
if (!(new File(theDir)).isDirectory()) {
(new File(theDir)).mkdirs();
logger.info("Made the directory " + theDir);
}
// MultipartRequest multi = new MultipartRequest(request, theDir, 50 * 1024 * 1024);
File f = null;
try {
f = uploadFile(theDir, version);
} catch (Exception e) {
logger.warn("*** Found exception during file upload***");
e.printStackTrace();
}
if (f == null) {
forwardPage(Page.IMPORT_CRF_DATA);
}
// TODO
// validation steps
// 1. valid xml - validated by file uploader below
// LocalConfiguration config = LocalConfiguration.getInstance();
// config.getProperties().setProperty(
// "org.exolab.castor.parser.namespaces",
// "true");
// config
// .getProperties()
// .setProperty("org.exolab.castor.sax.features",
// "http://xml.org/sax/features/validation,
// http://apache.org/xml/features/validation/schema,
// http://apache.org/xml/features/validation/schema-full-checking");
// // above sets to validate against namespace
Mapping myMap = new Mapping();
String propertiesPath = CoreResources.PROPERTIES_DIR;
myMap.loadMapping(propertiesPath + File.separator + "cd_odm_mapping.xml");
Unmarshaller um1 = new Unmarshaller(myMap);
// um1.addNamespaceToPackageMapping("http://www.cdisc.org/ns/odm/v1.3"
// ,
// "ODMContainer");
boolean fail = false;
ODMContainer odmContainer = new ODMContainer();
try {
// schemaValidator.validateAgainstSchema(f, xsdFile);
// utf-8 compliance, tbh 06/2009
InputStreamReader isr = new InputStreamReader(new FileInputStream(f), "UTF-8");
odmContainer = (ODMContainer) um1.unmarshal(isr);
System.out.println(
"Found crf data container for study oid: "
+ odmContainer.getCrfDataPostImportContainer().getStudyOID());
System.out.println(
"found length of subject list: "
+ odmContainer.getCrfDataPostImportContainer().getSubjectData().size());
// 2. validates against ODM 1.3
// check it all below, throw an exception and route to a
// different
// page if not working
// TODO this block of code needs the xerces serializer in order
// to
// work
// StringWriter myWriter = new StringWriter();
// Marshaller m1 = new Marshaller(myWriter);
//
// m1.setProperty("org.exolab.castor.parser.namespaces",
// "true");
// m1
// .setProperty("org.exolab.castor.sax.features",
// "http://xml.org/sax/features/validation,
// http://apache.org/xml/features/validation/schema,
// http://apache.org/xml/features/validation/schema-full-checking
// ");
//
// m1.setMapping(myMap);
// m1.setNamespaceMapping("",
// "http://www.cdisc.org/ns/odm/v1.3");
// m1.setSchemaLocation("http://www.cdisc.org/ns/odm/v1.3
// ODM1-3.xsd");
// m1.marshal(odmContainer);
// if you havent thrown it, you wont throw it here
addPageMessage(respage.getString("passed_xml_validation"));
} catch (Exception me1) {
me1.printStackTrace();
// expanding it to all exceptions, but hoping to catch Marshal
// Exception or SAX Exceptions
logger.info("found exception with xml transform");
//
logger.info("trying 1.2.1");
try {
schemaValidator.validateAgainstSchema(f, xsdFile2);
// for backwards compatibility, we also try to validate vs
// 1.2.1 ODM 06/2008
InputStreamReader isr = new InputStreamReader(new FileInputStream(f), "UTF-8");
odmContainer = (ODMContainer) um1.unmarshal(isr);
} catch (Exception me2) {
// not sure if we want to report me2
MessageFormat mf = new MessageFormat("");
mf.applyPattern(respage.getString("your_xml_is_not_well_formed"));
Object[] arguments = {me1.getMessage()};
addPageMessage(mf.format(arguments));
//
// addPageMessage("Your XML is not well-formed, and does not
// comply with the ODM 1.3 Schema. Please check it, and try
// again. It returned the message: "
// + me1.getMessage());
// me1.printStackTrace();
forwardPage(Page.IMPORT_CRF_DATA);
// you can't really wait to forward because then you throw
// NPEs
// in the next few parts of the code
}
}
// TODO need to output further here
// 2.a. is the study the same one that the user is in right now?
// 3. validates against study metadata
// 3.a. is that study subject in that study?
// 3.b. is that study event def in that study?
// 3.c. is that site in that study?
// 3.d. is that crf version in that study event def?
// 3.e. are those item groups in that crf version?
// 3.f. are those items in that item group?
List<String> errors =
getImportCRFDataService().validateStudyMetadata(odmContainer, ub.getActiveStudyId());
if (errors != null) {
// add to session
// forward to another page
logger.info(errors.toString());
for (String error : errors) {
addPageMessage(error);
}
if (errors.size() > 0) {
// fail = true;
forwardPage(Page.IMPORT_CRF_DATA);
} else {
addPageMessage(respage.getString("passed_study_check"));
addPageMessage(respage.getString("passed_oid_metadata_check"));
}
}
System.out.println("passed error check");
// TODO ADD many validation steps before we get to the
// session-setting below
// 4. is the event in the correct status to accept data import?
// -- scheduled, data entry started, completed
// (and the event should already be created)
// (and the event should be independent, ie not affected by other
// events)
List<EventCRFBean> eventCRFBeans =
getImportCRFDataService().fetchEventCRFBeans(odmContainer, ub);
ArrayList<Integer> permittedEventCRFIds = new ArrayList<Integer>();
logger.info("found a list of eventCRFBeans: " + eventCRFBeans.toString());
List<DisplayItemBeanWrapper> displayItemBeanWrappers =
new ArrayList<DisplayItemBeanWrapper>();
HashMap<String, String> totalValidationErrors = new HashMap<String, String>();
HashMap<String, String> hardValidationErrors = new HashMap<String, String>();
System.out.println("found event crfs " + eventCRFBeans.size());
// -- does the event already exist? if not, fail
if (!eventCRFBeans.isEmpty()) {
for (EventCRFBean eventCRFBean : eventCRFBeans) {
DataEntryStage dataEntryStage = eventCRFBean.getStage();
Status eventCRFStatus = eventCRFBean.getStatus();
logger.info(
"Event CRF Bean: id "
+ eventCRFBean.getId()
+ ", data entry stage "
+ dataEntryStage.getName()
+ ", status "
+ eventCRFStatus.getName());
if (eventCRFStatus.equals(Status.AVAILABLE)
|| dataEntryStage.equals(DataEntryStage.INITIAL_DATA_ENTRY)
|| dataEntryStage.equals(DataEntryStage.INITIAL_DATA_ENTRY_COMPLETE)
|| dataEntryStage.equals(DataEntryStage.DOUBLE_DATA_ENTRY_COMPLETE)
|| dataEntryStage.equals(DataEntryStage.DOUBLE_DATA_ENTRY)) {
// actually want the negative
// was status == available and the stage questions, but
// when you are at 'data entry complete' your status is
// set to 'unavailable'.
// >> tbh 09/2008
// HOWEVER, when one event crf is removed and the rest
// are good, what happens???
// need to create a list and inform that one is blocked
// and the rest are not...
//
permittedEventCRFIds.add(new Integer(eventCRFBean.getId()));
} else {
// fail = true;
// addPageMessage(respage.getString(
// "the_event_crf_not_correct_status"));
// forwardPage(Page.IMPORT_CRF_DATA);
}
}
// so that we don't repeat this following message
// did we exclude all the event CRFs? if not, pass, else fail
if (eventCRFBeans.size() >= permittedEventCRFIds.size()) {
addPageMessage(respage.getString("passed_event_crf_status_check"));
} else {
fail = true;
addPageMessage(respage.getString("the_event_crf_not_correct_status"));
}
// do they all have to have the right status to move
// forward? answer from bug tracker = no
// 5. do the items contain the correct data types?
// 6. are all the related OIDs present?
// that is to say, do we chain all the way down?
// this is covered by the OID Metadata Check
// 7. do the edit checks pass?
// only then can we pass on to VERIFY_IMPORT_SERVLET
// do we overwrite?
// XmlParser xp = new XmlParser();
// List<HashMap<String, String>> importedData =
// xp.getData(f);
// now we generate hard edit checks, and have to set that to the
// screen. get that from the service, generate a summary bean to
// set to either
// page in the workflow, either verifyImport.jsp or import.jsp
try {
List<DisplayItemBeanWrapper> tempDisplayItemBeanWrappers =
new ArrayList<DisplayItemBeanWrapper>();
tempDisplayItemBeanWrappers =
getImportCRFDataService()
.lookupValidationErrors(
request,
odmContainer,
ub,
totalValidationErrors,
hardValidationErrors,
permittedEventCRFIds);
System.out.println(
"generated display item bean wrappers " + tempDisplayItemBeanWrappers.size());
System.out.println("size of total validation errors: " + totalValidationErrors.size());
displayItemBeanWrappers.addAll(tempDisplayItemBeanWrappers);
} catch (NullPointerException npe1) {
// what if you have 2 event crfs but the third is a fake?
fail = true;
logger.debug("threw a NPE after calling lookup validation errors");
addPageMessage(respage.getString("an_error_was_thrown_while_validation_errors"));
System.out.println("threw the null pointer at line 323, import");
// npe1.printStackTrace();
} catch (OpenClinicaException oce1) {
fail = true;
logger.debug(
"threw an OCE after calling lookup validation errors "
+ oce1.getOpenClinicaMessage());
addPageMessage(oce1.getOpenClinicaMessage());
System.out.println("threw the openclinica message at line 327, import");
}
} else {
fail = true;
addPageMessage(respage.getString("no_event_crfs_matching_the_xml_metadata"));
}
// for (HashMap<String, String> crfData : importedData) {
// DisplayItemBeanWrapper displayItemBeanWrapper =
// testing(request,
// crfData);
// displayItemBeanWrappers.add(displayItemBeanWrapper);
// errors = displayItemBeanWrapper.getValidationErrors();
//
// }
if (fail) {
System.out.println("failed here - forwarding...");
forwardPage(Page.IMPORT_CRF_DATA);
} else {
addPageMessage(respage.getString("passing_crf_edit_checks"));
session.setAttribute("importedData", displayItemBeanWrappers);
session.setAttribute("validationErrors", totalValidationErrors);
session.setAttribute("hardValidationErrors", hardValidationErrors);
// above are updated 'statically' by the method that originally
// generated the wrappers; soon the only thing we will use
// wrappers for is the 'overwrite' flag
System.out.println("found total validation errors: " + totalValidationErrors.size());
logger.debug("+++ content of total validation errors: " + totalValidationErrors.toString());
SummaryStatsBean ssBean =
getImportCRFDataService()
.generateSummaryStatsBean(odmContainer, displayItemBeanWrappers);
session.setAttribute("summaryStats", ssBean);
// will have to set hard edit checks here as well
session.setAttribute(
"subjectData", odmContainer.getCrfDataPostImportContainer().getSubjectData());
System.out.println("did not fail - forwarding...");
forwardPage(Page.VERIFY_IMPORT_SERVLET);
}
}
}
@Override
protected void processRequest() throws Exception {
checkStudyLocked(Page.LIST_STUDY_SUBJECTS, respage.getString("current_study_locked"));
panel.setStudyInfoShown(false);
fp = new FormProcessor(request);
FormDiscrepancyNotes discNotes = null;
int studySubjectId = fp.getInt(INPUT_STUDY_SUBJECT_ID_FROM_VIEWSUBJECT);
// input from manage subject matrix, user has specified definition id
int studyEventDefinitionId = fp.getInt(INPUT_STUDY_EVENT_DEFINITION);
// TODO: make this sensitive to permissions
StudySubjectDAO sdao = new StudySubjectDAO(sm.getDataSource());
StudySubjectBean ssb;
if (studySubjectId <= 0) {
ssb = (StudySubjectBean) request.getAttribute(INPUT_STUDY_SUBJECT);
} else {
// YW 11-08-2007, << a new study event could not be added if its
// study subject has been removed
ssb = (StudySubjectBean) sdao.findByPK(studySubjectId);
Status s = ssb.getStatus();
if ("removed".equalsIgnoreCase(s.getName()) || "auto-removed".equalsIgnoreCase(s.getName())) {
addPageMessage(
resword.getString("study_event")
+ resterm.getString("could_not_be")
+ resterm.getString("added")
+ "."
+ respage.getString("study_subject_has_been_deleted"));
request.setAttribute("id", new Integer(studySubjectId).toString());
forwardPage(Page.VIEW_STUDY_SUBJECT_SERVLET);
}
// YW >>
request.setAttribute(INPUT_REQUEST_STUDY_SUBJECT, "no");
}
// running this crashes the server, or so we think...instead, let's grab a count
// or remove it altogether tbh 10/2009
// ArrayList subjects = sdao.findAllActiveByStudyOrderByLabel(currentStudy);
// TODO: make this sensitive to permissions
StudyEventDefinitionDAO seddao = new StudyEventDefinitionDAO(sm.getDataSource());
StudyBean studyWithEventDefinitions = currentStudy;
if (currentStudy.getParentStudyId() > 0) {
studyWithEventDefinitions = new StudyBean();
studyWithEventDefinitions.setId(currentStudy.getParentStudyId());
}
// find all active definitions with CRFs
ArrayList eventDefinitions = seddao.findAllActiveByStudy(studyWithEventDefinitions);
// EventDefinitionCRFDAO edcdao = new
// EventDefinitionCRFDAO(sm.getDataSource());
// ArrayList definitionsWithCRF = new ArrayList();
// for (int i=0; i<eventDefinitions.size(); i++) {
// StudyEventDefinitionBean sed =
// (StudyEventDefinitionBean)eventDefinitions.get(i);
// logger.info("StudyEventDefinition name[" + sed.getName() + "]");
// ArrayList edcs = edcdao.findAllByEventDefinitionId(sed.getId());
// if (!edcs.isEmpty()) {
// definitionsWithCRF.add(sed);
// }
// }
// Collections.sort(definitionsWithCRF);
Collections.sort(eventDefinitions);
/*
* ArrayList eventDefinitionsScheduled = new ArrayList(); for (int i =
* 0; i < eventDefinitions.size(); i++) { StudyEventDefinitionBean sed =
* (StudyEventDefinitionBean) eventDefinitions.get(i); if
* (sed.getType().equalsIgnoreCase("scheduled")) {
* eventDefinitionsScheduled.add(sed); } }
*/
// all definitions will appear in scheduled event creation box-11/26/05
ArrayList eventDefinitionsScheduled = eventDefinitions;
if (!fp.isSubmitted()) {
// StudyEventDAO sed = new StudyEventDAO(sm.getDataSource());
// sed.updateSampleOrdinals_v092();
HashMap presetValues = new HashMap();
// YW 08-16-2007 << set default as blank for time
presetValues.put(INPUT_STARTDATE_PREFIX + "Hour", new Integer(-1));
presetValues.put(INPUT_STARTDATE_PREFIX + "Minute", new Integer(-1));
presetValues.put(INPUT_STARTDATE_PREFIX + "Half", new String(""));
presetValues.put(INPUT_ENDDATE_PREFIX + "Hour", new Integer(-1));
presetValues.put(INPUT_ENDDATE_PREFIX + "Minute", new Integer(-1));
presetValues.put(INPUT_ENDDATE_PREFIX + "Half", new String(""));
for (int i = 0; i < ADDITIONAL_SCHEDULED_NUM; ++i) {
presetValues.put(INPUT_STARTDATE_PREFIX_SCHEDULED[i] + "Hour", new Integer(-1));
presetValues.put(INPUT_STARTDATE_PREFIX_SCHEDULED[i] + "Minute", new Integer(-1));
presetValues.put(INPUT_STARTDATE_PREFIX_SCHEDULED[i] + "Half", new String(""));
presetValues.put(INPUT_ENDDATE_PREFIX_SCHEDULED[i] + "Hour", new Integer(-1));
presetValues.put(INPUT_ENDDATE_PREFIX_SCHEDULED[i] + "Minute", new Integer(-1));
presetValues.put(INPUT_ENDDATE_PREFIX_SCHEDULED[i] + "Half", new String(""));
}
// SimpleDateFormat sdf = new SimpleDateFormat("MM/dd/yyyy");
// example of taking the above line and transferring to i18n on the
// below line, tbh
String dateValue = local_df.format(new Date(System.currentTimeMillis()));
presetValues.put(INPUT_STARTDATE_PREFIX + "Date", dateValue);
for (int i = 0; i < ADDITIONAL_SCHEDULED_NUM; ++i) {
presetValues.put(INPUT_STARTDATE_PREFIX_SCHEDULED[i] + "Date", dateValue);
// location
presetValues.put(INPUT_SCHEDULED_LOCATION[i], currentStudy.getFacilityCity());
presetValues.put(this.DISPLAY_SCHEDULED[i], "none");
}
presetValues.put(INPUT_LOCATION, currentStudy.getFacilityCity()); // defualt
if (ssb != null && ssb.isActive()) {
presetValues.put(INPUT_STUDY_SUBJECT, ssb);
String requestStudySubject = (String) request.getAttribute(INPUT_REQUEST_STUDY_SUBJECT);
if (requestStudySubject != null) {
presetValues.put(INPUT_REQUEST_STUDY_SUBJECT, requestStudySubject);
dateValue = local_df.format(new Date());
presetValues.put(INPUT_STARTDATE_PREFIX + "Date", dateValue);
}
}
if (studyEventDefinitionId > 0) {
StudyEventDefinitionBean sed =
(StudyEventDefinitionBean) seddao.findByPK(studyEventDefinitionId);
presetValues.put(INPUT_STUDY_EVENT_DEFINITION, sed);
}
// tbh
logger.info("set preset values: " + presetValues.toString());
System.out.println("set preset values: " + presetValues.toString());
logger.info("found def.w.CRF list, size " + eventDefinitions.size());
// tbh
setPresetValues(presetValues);
ArrayList subjects = new ArrayList();
setupBeans(subjects, eventDefinitions);
discNotes = new FormDiscrepancyNotes();
session.setAttribute(AddNewSubjectServlet.FORM_DISCREPANCY_NOTES_NAME, discNotes);
request.setAttribute("eventDefinitionsScheduled", eventDefinitionsScheduled);
setInputMessages(new HashMap());
forwardPage(Page.CREATE_NEW_STUDY_EVENT);
} else {
// tbh
// String dateCheck = (String)request.getAttribute("startDate");
// String endCheck = (String)request.getAttribute("endDate");
// logger.info(dateCheck+"; "+endCheck);
String dateCheck2 = request.getParameter("startDate");
String endCheck2 = request.getParameter("endDate");
logger.info(dateCheck2 + "; " + endCheck2);
// YW, 3-12-2008, 2220 fix <<
String strEnd = fp.getDateTimeInputString(INPUT_ENDDATE_PREFIX);
String strEndScheduled[] = new String[ADDITIONAL_SCHEDULED_NUM];
for (int i = 0; i < ADDITIONAL_SCHEDULED_NUM; ++i) {
strEndScheduled[i] = fp.getDateTimeInputString(INPUT_ENDDATE_PREFIX_SCHEDULED[i]);
}
Date start = getInputStartDate();
Date end = null;
Date[] startScheduled = new Date[ADDITIONAL_SCHEDULED_NUM];
for (int i = 0; i < ADDITIONAL_SCHEDULED_NUM; ++i) {
startScheduled[i] = getInputStartDateScheduled(i);
}
Date[] endScheduled = new Date[ADDITIONAL_SCHEDULED_NUM];
// YW >>
// for (java.util.Enumeration enu = request.getAttributeNames();
// enu.hasMoreElements() ;) {
// logger.info(">>> found "+enu.nextElement().toString());
// }
// tbh
discNotes =
(FormDiscrepancyNotes)
session.getAttribute(AddNewSubjectServlet.FORM_DISCREPANCY_NOTES_NAME);
if (discNotes == null) {
discNotes = new FormDiscrepancyNotes();
session.setAttribute(AddNewSubjectServlet.FORM_DISCREPANCY_NOTES_NAME, discNotes);
}
DiscrepancyValidator v = new DiscrepancyValidator(request, discNotes);
v.addValidation(INPUT_STARTDATE_PREFIX, Validator.IS_DATE_TIME);
v.alwaysExecuteLastValidation(INPUT_STARTDATE_PREFIX);
if (!strEnd.equals("")) {
v.addValidation(INPUT_ENDDATE_PREFIX, Validator.IS_DATE_TIME);
v.alwaysExecuteLastValidation(INPUT_ENDDATE_PREFIX);
}
v.addValidation(
INPUT_STUDY_EVENT_DEFINITION,
Validator.ENTITY_EXISTS_IN_STUDY,
seddao,
studyWithEventDefinitions);
// v.addValidation(INPUT_STUDY_SUBJECT, Validator.ENTITY_EXISTS_IN_STUDY, sdao, currentStudy);
// removed tbh 11/2009
v.addValidation(INPUT_LOCATION, Validator.NO_BLANKS);
v.addValidation(INPUT_STUDY_SUBJECT_LABEL, Validator.NO_BLANKS);
v.addValidation(
INPUT_LOCATION,
Validator.LENGTH_NUMERIC_COMPARISON,
NumericComparisonOperator.LESS_THAN_OR_EQUAL_TO,
2000);
v.alwaysExecuteLastValidation(INPUT_LOCATION);
boolean hasScheduledEvent = false;
for (int i = 0; i < ADDITIONAL_SCHEDULED_NUM; ++i) {
if (!StringUtil.isBlank(fp.getString(this.INPUT_STUDY_EVENT_DEFINITION_SCHEDULED[i]))) {
// logger.info("has scheduled definition******");
v.addValidation(
this.INPUT_STUDY_EVENT_DEFINITION_SCHEDULED[i],
Validator.ENTITY_EXISTS_IN_STUDY,
seddao,
studyWithEventDefinitions);
v.addValidation(INPUT_SCHEDULED_LOCATION[i], Validator.NO_BLANKS);
v.addValidation(
INPUT_SCHEDULED_LOCATION[i],
Validator.LENGTH_NUMERIC_COMPARISON,
NumericComparisonOperator.LESS_THAN_OR_EQUAL_TO,
2000);
v.alwaysExecuteLastValidation(INPUT_SCHEDULED_LOCATION[i]);
v.addValidation(INPUT_STARTDATE_PREFIX_SCHEDULED[i], Validator.IS_DATE_TIME);
v.alwaysExecuteLastValidation(INPUT_STARTDATE_PREFIX_SCHEDULED[i]);
if (!strEndScheduled[i].equals("")) {
v.addValidation(INPUT_ENDDATE_PREFIX_SCHEDULED[i], Validator.IS_DATE_TIME);
v.alwaysExecuteLastValidation(INPUT_ENDDATE_PREFIX_SCHEDULED[i]);
}
hasScheduledEvent = true;
fp.addPresetValue(DISPLAY_SCHEDULED[i], "all");
} else {
fp.addPresetValue(DISPLAY_SCHEDULED[i], "none");
}
}
HashMap errors = v.validate();
// logger.info("v is not null *****");
String location = resword.getString("location");
// don't allow user to use the default value 'Location' since
// location
// is a required field
if (!StringUtil.isBlank(fp.getString(INPUT_LOCATION))
&& fp.getString(INPUT_LOCATION).equalsIgnoreCase(location)) {
Validator.addError(errors, INPUT_LOCATION, restext.getString("not_a_valid_location"));
}
StudyEventDefinitionBean definition =
(StudyEventDefinitionBean) seddao.findByPK(fp.getInt(INPUT_STUDY_EVENT_DEFINITION));
// StudySubjectBean studySubject = (StudySubjectBean)
// sdao.findByPK(fp.getInt(INPUT_STUDY_SUBJECT));
// sdao.findByLabelAndStudy(label, study)
StudySubjectBean studySubject =
(StudySubjectBean)
sdao.findByLabelAndStudy(fp.getString(INPUT_STUDY_SUBJECT_LABEL), currentStudy);
// >> 4358 tbh, 11/2009
// what if we are sent here from AddNewSubjectServlet.java??? we need to get that study
// subject bean
if (request.getAttribute(INPUT_STUDY_SUBJECT) != null) {
studySubject = (StudySubjectBean) request.getAttribute(INPUT_STUDY_SUBJECT);
}
// << tbh
if (studySubject.getLabel() == "") {
// add an error here, tbh
System.out.println("tripped the error here 20091109");
Validator.addError(
errors,
INPUT_STUDY_SUBJECT,
respage.getString("must_enter_subject_ID_for_identifying"));
}
if (!subjectMayReceiveStudyEvent(sm.getDataSource(), definition, studySubject)) {
Validator.addError(
errors,
INPUT_STUDY_EVENT_DEFINITION,
restext.getString("not_added_since_event_not_repeating"));
}
ArrayList<StudyEventDefinitionBean> definitionScheduleds =
new ArrayList<StudyEventDefinitionBean>();
int[] scheduledDefinitionIds = new int[ADDITIONAL_SCHEDULED_NUM];
if (hasScheduledEvent) {
for (int i = 0; i < ADDITIONAL_SCHEDULED_NUM; ++i) {
int pk = fp.getInt(INPUT_STUDY_EVENT_DEFINITION_SCHEDULED[i]);
if (pk > 0) {
StudyEventDefinitionBean sedb = (StudyEventDefinitionBean) seddao.findByPK(pk);
System.out.println(
"scheduled def:"
+ pk
+ " "
+ INPUT_STUDY_EVENT_DEFINITION_SCHEDULED[i]
+ " "
+ sedb.getName());
definitionScheduleds.add(sedb);
scheduledDefinitionIds[i] = pk;
if (!subjectMayReceiveStudyEvent(sm.getDataSource(), sedb, studySubject)) {
Validator.addError(
errors,
INPUT_STUDY_EVENT_DEFINITION_SCHEDULED[i],
restext.getString("not_added_since_event_not_repeating"));
}
} else {
definitionScheduleds.add(new StudyEventDefinitionBean());
}
}
}
// YW, 3-12-2008, 2220 fix >>
if (!"".equals(strEnd)
&& !errors.containsKey(INPUT_STARTDATE_PREFIX)
&& !errors.containsKey(INPUT_ENDDATE_PREFIX)) {
end = getInputEndDate();
if (!fp.getString(INPUT_STARTDATE_PREFIX + "Date")
.equals(fp.getString(INPUT_ENDDATE_PREFIX + "Date"))) {
if (end.before(start)) {
Validator.addError(
errors,
INPUT_ENDDATE_PREFIX,
resexception.getString("input_provided_not_occure_after_previous_start_date_time"));
}
} else {
// if in same date, only check when both had time entered
if (fp.timeEntered(INPUT_STARTDATE_PREFIX) && fp.timeEntered(INPUT_ENDDATE_PREFIX)) {
if (end.before(start) || end.equals(start)) {
Validator.addError(
errors,
INPUT_ENDDATE_PREFIX,
resexception.getString(
"input_provided_not_occure_after_previous_start_date_time"));
}
}
}
}
String prevStartPrefix = INPUT_STARTDATE_PREFIX;
Set<Integer> pickedSeds = new TreeSet<Integer>();
pickedSeds.add(studyEventDefinitionId);
HashMap<Integer, Integer> scheduledSeds = new HashMap<Integer, Integer>();
scheduledSeds.put(studyEventDefinitionId, -1);
for (int i = 0; i < ADDITIONAL_SCHEDULED_NUM; ++i) {
if (scheduledDefinitionIds[i] > 0
&& !errors.containsKey(INPUT_STARTDATE_PREFIX_SCHEDULED[i])
&& !errors.containsKey(INPUT_ENDDATE_PREFIX_SCHEDULED[i])) {
if (scheduledSeds.containsKey(scheduledDefinitionIds[i])) {
int prevStart = scheduledSeds.get(scheduledDefinitionIds[i]);
prevStartPrefix =
prevStart == -1
? INPUT_STARTDATE_PREFIX
: INPUT_STARTDATE_PREFIX_SCHEDULED[prevStart];
Date prevStartDate =
prevStart == -1
? this.getInputStartDate()
: this.getInputStartDateScheduled(
Integer.parseInt(
prevStartPrefix.charAt(prevStartPrefix.length() - 1) + ""));
if (fp.getString(INPUT_STARTDATE_PREFIX_SCHEDULED[i] + "Date")
.equals(fp.getString(prevStartPrefix + "Date"))) {
// if in same day, only check when both have time
// inputs.
boolean schStartTime = fp.timeEntered(INPUT_STARTDATE_PREFIX_SCHEDULED[i]);
boolean startTime = fp.timeEntered(prevStartPrefix);
if (schStartTime && startTime) {
if (startScheduled[i].before(prevStartDate)) {
Validator.addError(
errors,
INPUT_STARTDATE_PREFIX_SCHEDULED[i],
resexception.getString(
"input_provided_not_occure_after_previous_start_date_time"));
}
}
} else {
if (startScheduled[i].before(prevStartDate)) {
Validator.addError(
errors,
INPUT_STARTDATE_PREFIX_SCHEDULED[i],
resexception.getString(
"input_provided_not_occure_after_previous_start_date_time"));
}
}
}
scheduledSeds.put(scheduledDefinitionIds[i], i);
if (!strEndScheduled[i].equals("")) {
endScheduled[i] = fp.getDateTime(INPUT_ENDDATE_PREFIX_SCHEDULED[i]);
String prevEndPrefix =
i > 0 ? INPUT_ENDDATE_PREFIX_SCHEDULED[i - 1] : INPUT_ENDDATE_PREFIX;
if (!fp.getString(INPUT_STARTDATE_PREFIX_SCHEDULED[i] + "Date")
.equals(fp.getString(prevEndPrefix + "Date"))) {
if (endScheduled[i].before(startScheduled[i])) {
Validator.addError(
errors,
INPUT_ENDDATE_PREFIX_SCHEDULED[i],
resexception.getString(
"input_provided_not_occure_after_previous_start_date_time"));
}
} else {
// if in same date, only check when both had time
// entered
if (fp.timeEntered(INPUT_STARTDATE_PREFIX_SCHEDULED[i])
&& fp.timeEntered(INPUT_ENDDATE_PREFIX_SCHEDULED[i])) {
if (endScheduled[i].before(startScheduled[i])
|| endScheduled[i].equals(startScheduled[i])) {
Validator.addError(
errors,
INPUT_ENDDATE_PREFIX_SCHEDULED[i],
resexception.getString(
"input_provided_not_occure_after_previous_start_date_time"));
}
}
}
}
}
}
// YW >>
System.out.println("we have errors; number of this; " + errors.size());
if (!errors.isEmpty()) {
logger.info("we have errors; number of this; " + errors.size());
System.out.println(
"found request study subject: " + fp.getString(INPUT_REQUEST_STUDY_SUBJECT));
addPageMessage(respage.getString("errors_in_submission_see_below"));
setInputMessages(errors);
fp.addPresetValue(INPUT_STUDY_EVENT_DEFINITION, definition);
fp.addPresetValue(INPUT_STUDY_SUBJECT, studySubject);
fp.addPresetValue(INPUT_STUDY_SUBJECT_LABEL, fp.getString(INPUT_STUDY_SUBJECT_LABEL));
fp.addPresetValue(INPUT_REQUEST_STUDY_SUBJECT, fp.getString(INPUT_REQUEST_STUDY_SUBJECT));
fp.addPresetValue(INPUT_LOCATION, fp.getString(INPUT_LOCATION));
for (int i = 0; i < ADDITIONAL_SCHEDULED_NUM; ++i) {
fp.addPresetValue(INPUT_SCHEDULED_LOCATION[i], fp.getString(INPUT_SCHEDULED_LOCATION[i]));
}
String prefixes[] = new String[2 + 2 * ADDITIONAL_SCHEDULED_NUM];
prefixes[0] = INPUT_STARTDATE_PREFIX;
prefixes[1] = INPUT_ENDDATE_PREFIX;
int b = ADDITIONAL_SCHEDULED_NUM + 2;
for (int i = 2; i < b; ++i) {
prefixes[i] = INPUT_STARTDATE_PREFIX_SCHEDULED[i - 2];
}
for (int i = b; i < ADDITIONAL_SCHEDULED_NUM + b; ++i) {
prefixes[i] = INPUT_ENDDATE_PREFIX_SCHEDULED[i - b];
}
fp.setCurrentDateTimeValuesAsPreset(prefixes);
if (hasScheduledEvent) {
for (int i = 0; i < ADDITIONAL_SCHEDULED_NUM; ++i) {
fp.addPresetValue(
INPUT_STUDY_EVENT_DEFINITION_SCHEDULED[i], definitionScheduleds.get(i));
}
}
setPresetValues(fp.getPresetValues());
ArrayList subjects = new ArrayList();
setupBeans(subjects, eventDefinitions);
request.setAttribute("eventDefinitionsScheduled", eventDefinitionsScheduled);
forwardPage(Page.CREATE_NEW_STUDY_EVENT);
} else {
System.out.println("error is empty");
StudyEventDAO sed = new StudyEventDAO(sm.getDataSource());
StudyEventBean studyEvent = new StudyEventBean();
studyEvent.setStudyEventDefinitionId(definition.getId());
studyEvent.setStudySubjectId(studySubject.getId());
// YW 08-17-2007 <<
if ("-1".equals(getInputStartHour())
&& "-1".equals(getInputStartMinute())
&& "".equals(getInputStartHalf())) {
studyEvent.setStartTimeFlag(false);
} else {
studyEvent.setStartTimeFlag(true);
}
// YW >>
studyEvent.setDateStarted(start);
// comment to find bug 1389, tbh
logger.info("found start date: " + local_df.format(start));
Date startScheduled2[] = new Date[ADDITIONAL_SCHEDULED_NUM];
for (int i = 0; i < ADDITIONAL_SCHEDULED_NUM; ++i) {
startScheduled2[i] = getInputStartDateScheduled(i);
}
// tbh
// YW, 3-12-2008, 2220 fix <<
if (!"".equals(strEnd)) {
// YW >>
if ("-1".equals(getInputEndHour())
&& "-1".equals(getInputEndMinute())
&& "".equals(getInputEndHalf())) {
studyEvent.setEndTimeFlag(false);
} else {
studyEvent.setEndTimeFlag(true);
}
studyEvent.setDateEnded(end);
}
studyEvent.setOwner(ub);
studyEvent.setStatus(Status.AVAILABLE);
studyEvent.setLocation(fp.getString(INPUT_LOCATION));
studyEvent.setSubjectEventStatus(SubjectEventStatus.SCHEDULED);
// ArrayList subjectsExistingEvents =
// sed.findAllByStudyAndStudySubjectId(currentStudy,
// studySubject.getId());
studyEvent.setSampleOrdinal(sed.getMaxSampleOrdinal(definition, studySubject) + 1);
studyEvent = (StudyEventBean) sed.create(studyEvent);
if (!studyEvent.isActive()) {
throw new OpenClinicaException(restext.getString("event_not_created_in_database"), "2");
}
addPageMessage(
restext.getString("X_event_wiht_definition")
+ definition.getName()
+ restext.getString("X_and_subject")
+ studySubject.getName()
+ respage.getString("X_was_created_succesfully"));
// save discrepancy notes into DB
FormDiscrepancyNotes fdn =
(FormDiscrepancyNotes)
session.getAttribute(AddNewSubjectServlet.FORM_DISCREPANCY_NOTES_NAME);
DiscrepancyNoteDAO dndao = new DiscrepancyNoteDAO(sm.getDataSource());
String[] eventFields = {INPUT_LOCATION, INPUT_STARTDATE_PREFIX, INPUT_ENDDATE_PREFIX};
for (String element : eventFields) {
AddNewSubjectServlet.saveFieldNotes(
element, fdn, dndao, studyEvent.getId(), "studyEvent", currentStudy);
}
// logger.info("here ok 3333333333333333");
if (hasScheduledEvent) {
for (int i = 0; i < ADDITIONAL_SCHEDULED_NUM; ++i) {
// should only do the following process if user inputs a
// scheduled event,
// which is scheduledDefinitionIds[i] > 0
if (scheduledDefinitionIds[i] > 0) {
if (subjectMayReceiveStudyEvent(
sm.getDataSource(), definitionScheduleds.get(i), studySubject)) {
StudyEventBean studyEventScheduled = new StudyEventBean();
studyEventScheduled.setStudyEventDefinitionId(scheduledDefinitionIds[i]);
studyEventScheduled.setStudySubjectId(studySubject.getId());
// YW 11-14-2007
if ("-1".equals(fp.getString(INPUT_STARTDATE_PREFIX_SCHEDULED[i] + "Hour"))
&& "-1".equals(fp.getString(INPUT_STARTDATE_PREFIX_SCHEDULED[i] + "Minute"))
&& "".equals(fp.getString(INPUT_STARTDATE_PREFIX_SCHEDULED[i] + "Half"))) {
studyEventScheduled.setStartTimeFlag(false);
} else {
studyEventScheduled.setStartTimeFlag(true);
}
// YW >>
studyEventScheduled.setDateStarted(startScheduled[i]);
// YW, 3-12-2008, 2220 fix<<
if (!"".equals(strEndScheduled[i])) {
endScheduled[i] = fp.getDateTime(INPUT_ENDDATE_PREFIX_SCHEDULED[i]);
if ("-1".equals(fp.getString(INPUT_ENDDATE_PREFIX_SCHEDULED[i] + "Hour"))
&& "-1".equals(fp.getString(INPUT_ENDDATE_PREFIX_SCHEDULED[i] + "Minute"))
&& "".equals(fp.getString(INPUT_ENDDATE_PREFIX_SCHEDULED[i] + "Half"))) {
studyEventScheduled.setEndTimeFlag(false);
} else {
studyEventScheduled.setEndTimeFlag(true);
}
}
studyEventScheduled.setDateEnded(endScheduled[i]);
// YW >>
studyEventScheduled.setOwner(ub);
studyEventScheduled.setStatus(Status.AVAILABLE);
studyEventScheduled.setLocation(fp.getString(INPUT_SCHEDULED_LOCATION[i]));
studyEvent.setSubjectEventStatus(SubjectEventStatus.SCHEDULED);
// subjectsExistingEvents =
// sed.findAllByStudyAndStudySubjectId(
// currentStudy,
// studySubject.getId());
studyEventScheduled.setSampleOrdinal(
sed.getMaxSampleOrdinal(definitionScheduleds.get(i), studySubject) + 1);
// System.out.println("create scheduled events");
studyEventScheduled = (StudyEventBean) sed.create(studyEventScheduled);
if (!studyEventScheduled.isActive()) {
throw new OpenClinicaException(
restext.getString("scheduled_event_not_created_in_database"), "2");
}
AddNewSubjectServlet.saveFieldNotes(
INPUT_SCHEDULED_LOCATION[i],
fdn,
dndao,
studyEventScheduled.getId(),
"studyEvent",
currentStudy);
// YW 3-12-2008, 2220 fix <<
AddNewSubjectServlet.saveFieldNotes(
INPUT_STARTDATE_PREFIX_SCHEDULED[i],
fdn,
dndao,
studyEventScheduled.getId(),
"studyEvent",
currentStudy);
AddNewSubjectServlet.saveFieldNotes(
INPUT_ENDDATE_PREFIX_SCHEDULED[i],
fdn,
dndao,
studyEventScheduled.getId(),
"studyEvent",
currentStudy);
// YW >>
} else {
addPageMessage(
restext.getString("scheduled_event_definition")
+ definitionScheduleds.get(i).getName()
+ restext.getString("X_and_subject")
+ studySubject.getName()
+ restext.getString("not_created_since_event_not_repeating")
+ restext.getString("event_type_already_exists"));
}
}
}
} // if
session.removeAttribute(AddNewSubjectServlet.FORM_DISCREPANCY_NOTES_NAME);
request.setAttribute(
EnterDataForStudyEventServlet.INPUT_EVENT_ID, String.valueOf(studyEvent.getId()));
response.encodeRedirectURL("EnterDataForStudyEvent?eventId=" + studyEvent.getId());
forwardPage(Page.ENTER_DATA_FOR_STUDY_EVENT_SERVLET);
// we want to actually have url of entering data in browser, so
// redirecting
// response.sendRedirect(response.encodeRedirectURL(
// "EnterDataForStudyEvent?eventId="
// + studyEvent.getId()));
return;
}
}
}