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Example 36 with DiscrepancyNoteDAO

use of org.akaza.openclinica.dao.managestudy.DiscrepancyNoteDAO in project OpenClinica by OpenClinica.

the class ListDiscNotesSubjectServlet method processRequest.

// < ResourceBundleresexception,respage;
@Override
protected void processRequest() throws Exception {
    String module = request.getParameter("module");
    String moduleStr = "manage";
    if (module != null && module.trim().length() > 0) {
        if ("submit".equals(module)) {
            request.setAttribute("module", "submit");
            moduleStr = "submit";
        } else if ("admin".equals(module)) {
            request.setAttribute("module", "admin");
            moduleStr = "admin";
        } else {
            request.setAttribute("module", "manage");
        }
    }
    // << tbh 02/2010 filter out the entire module parameter to catch injections
    // BWP 3098>> close the info side panel and show icons
    request.setAttribute("closeInfoShowIcons", true);
    // <<
    // Determine whether to limit the displayed DN's to a certain DN type
    int resolutionStatus = 0;
    try {
        resolutionStatus = Integer.parseInt(request.getParameter("resolutionStatus"));
    } catch (NumberFormatException nfe) {
        // Show all DN's
        resolutionStatus = -1;
    }
    // Determine whether we already have a collection of resolutionStatus
    // Ids, and if not
    // create a new attribute. If there is no resolution status, then the
    // Set object should be cleared,
    // because we do not have to save a set of filter IDs.
    boolean hasAResolutionStatus = resolutionStatus >= 1 && resolutionStatus <= 5;
    Set<Integer> resolutionStatusIds = (HashSet) session.getAttribute(RESOLUTION_STATUS);
    // remove the session if there is no resolution status
    if (!hasAResolutionStatus && resolutionStatusIds != null) {
        session.removeAttribute(RESOLUTION_STATUS);
        resolutionStatusIds = null;
    }
    if (hasAResolutionStatus) {
        if (resolutionStatusIds == null) {
            resolutionStatusIds = new HashSet<Integer>();
        }
        resolutionStatusIds.add(resolutionStatus);
        session.setAttribute(RESOLUTION_STATUS, resolutionStatusIds);
    }
    int discNoteType = 0;
    try {
        discNoteType = Integer.parseInt(request.getParameter("type"));
    } catch (NumberFormatException nfe) {
        // Show all DN's
        discNoteType = -1;
    }
    request.setAttribute(DISCREPANCY_NOTE_TYPE, discNoteType);
    DiscrepancyNoteUtil discNoteUtil = new DiscrepancyNoteUtil();
    // Generate a summary of how we are filtering;
    Map<String, List<String>> filterSummary = discNoteUtil.generateFilterSummary(discNoteType, resolutionStatusIds);
    if (!filterSummary.isEmpty()) {
        request.setAttribute(FILTER_SUMMARY, filterSummary);
    }
    locale = LocaleResolver.getLocale(request);
    StudyBean sbean = (StudyBean) session.getAttribute("study");
    //List<DiscrepancyNoteBean> allDiscNotes = discNoteUtil.getThreadedDNotesForStudy(sbean, resolutionStatusIds, sm.getDataSource(), discNoteType, true);
    //Map stats = discNoteUtil.generateDiscNoteSummary(allDiscNotes);
    Map stats = discNoteUtil.generateDiscNoteSummaryRefactored(sm.getDataSource(), currentStudy, resolutionStatusIds, discNoteType);
    request.setAttribute("summaryMap", stats);
    Set mapKeys = stats.keySet();
    request.setAttribute("mapKeys", mapKeys);
    // < resword =
    // ResourceBundle.getBundle("org.akaza.openclinica.i18n.words",locale);
    StudyDAO studyDAO = new StudyDAO(sm.getDataSource());
    StudySubjectDAO sdao = new StudySubjectDAO(sm.getDataSource());
    StudyEventDAO sedao = new StudyEventDAO(sm.getDataSource());
    StudyEventDefinitionDAO seddao = new StudyEventDefinitionDAO(sm.getDataSource());
    SubjectGroupMapDAO sgmdao = new SubjectGroupMapDAO(sm.getDataSource());
    StudyGroupClassDAO sgcdao = new StudyGroupClassDAO(sm.getDataSource());
    StudyGroupDAO sgdao = new StudyGroupDAO(sm.getDataSource());
    StudySubjectDAO ssdao = new StudySubjectDAO(sm.getDataSource());
    EventCRFDAO edao = new EventCRFDAO(sm.getDataSource());
    EventDefinitionCRFDAO eddao = new EventDefinitionCRFDAO(sm.getDataSource());
    SubjectDAO subdao = new SubjectDAO(sm.getDataSource());
    DiscrepancyNoteDAO dnDAO = new DiscrepancyNoteDAO(sm.getDataSource());
    ListDiscNotesSubjectTableFactory factory = new ListDiscNotesSubjectTableFactory(ResourceBundleProvider.getTermsBundle(locale));
    factory.setStudyEventDefinitionDao(seddao);
    factory.setSubjectDAO(subdao);
    factory.setStudySubjectDAO(sdao);
    factory.setStudyEventDAO(sedao);
    factory.setStudyBean(currentStudy);
    factory.setStudyGroupClassDAO(sgcdao);
    factory.setSubjectGroupMapDAO(sgmdao);
    factory.setStudyDAO(studyDAO);
    factory.setCurrentRole(currentRole);
    factory.setCurrentUser(ub);
    factory.setEventCRFDAO(edao);
    factory.setEventDefintionCRFDAO(eddao);
    factory.setStudyGroupDAO(sgdao);
    factory.setDiscrepancyNoteDAO(dnDAO);
    factory.setModule(moduleStr);
    factory.setDiscNoteType(discNoteType);
    // factory.setStudyHasDiscNotes(allDiscNotes != null &&
    // !allDiscNotes.isEmpty());
    factory.setResolutionStatus(resolutionStatus);
    factory.setResolutionStatusIds(resolutionStatusIds);
    factory.setResword(ResourceBundleProvider.getWordsBundle(locale));
    String listDiscNotesHtml = factory.createTable(request, response).render();
    request.setAttribute("listDiscNotesHtml", listDiscNotesHtml);
    forwardPage(getJSP());
}
Also used : HashSet(java.util.HashSet) Set(java.util.Set) ListDiscNotesSubjectTableFactory(org.akaza.openclinica.control.submit.ListDiscNotesSubjectTableFactory) StudyGroupClassDAO(org.akaza.openclinica.dao.managestudy.StudyGroupClassDAO) StudySubjectDAO(org.akaza.openclinica.dao.managestudy.StudySubjectDAO) SubjectDAO(org.akaza.openclinica.dao.submit.SubjectDAO) StudyGroupDAO(org.akaza.openclinica.dao.managestudy.StudyGroupDAO) StudyEventDAO(org.akaza.openclinica.dao.managestudy.StudyEventDAO) List(java.util.List) DiscrepancyNoteUtil(org.akaza.openclinica.service.DiscrepancyNoteUtil) StudyDAO(org.akaza.openclinica.dao.managestudy.StudyDAO) EventCRFDAO(org.akaza.openclinica.dao.submit.EventCRFDAO) HashSet(java.util.HashSet) DiscrepancyNoteDAO(org.akaza.openclinica.dao.managestudy.DiscrepancyNoteDAO) SubjectGroupMapDAO(org.akaza.openclinica.dao.submit.SubjectGroupMapDAO) StudyBean(org.akaza.openclinica.bean.managestudy.StudyBean) EventDefinitionCRFDAO(org.akaza.openclinica.dao.managestudy.EventDefinitionCRFDAO) StudySubjectDAO(org.akaza.openclinica.dao.managestudy.StudySubjectDAO) StudyEventDefinitionDAO(org.akaza.openclinica.dao.managestudy.StudyEventDefinitionDAO) Map(java.util.Map)

Example 37 with DiscrepancyNoteDAO

use of org.akaza.openclinica.dao.managestudy.DiscrepancyNoteDAO in project OpenClinica by OpenClinica.

the class DiscrepancyNoteController method buidDiscrepancyNote.

@RequestMapping(value = "/dnote", method = RequestMethod.POST)
public ResponseEntity buidDiscrepancyNote(@RequestBody HashMap<String, String> map, HttpServletRequest request) throws Exception {
    ResourceBundleProvider.updateLocale(new Locale("en_US"));
    System.out.println("I'm in EnketoForm DN Rest Method");
    org.springframework.http.HttpStatus httpStatus = null;
    String se_oid = map.get("EntityID");
    String ordinal = map.get("Ordinal");
    // start_date , end_date , location
    String entityName = map.get("EntityName");
    String studySubjectOid = map.get("SS_OID");
    String noteType = map.get("NoteType");
    String resolutionStatus = map.get("Status");
    String assignedUser = map.get("AssignedUser");
    String owner = map.get("Owner");
    String description = map.get("Description");
    String detailedNotes = map.get("DetailedNote");
    String dn_id = map.get("DN_Id");
    dn_id = dn_id != null ? dn_id.replaceFirst("DN_", "") : dn_id;
    UserAccountDAO udao = new UserAccountDAO(dataSource);
    StudySubjectDAO ssdao = new StudySubjectDAO(dataSource);
    StudyEventDefinitionDAO seddao = new StudyEventDefinitionDAO(dataSource);
    StudyEventDAO sedao = new StudyEventDAO(dataSource);
    DiscrepancyNoteDAO dndao = new DiscrepancyNoteDAO(dataSource);
    UserAccountBean assignedUserBean = (UserAccountBean) udao.findByUserName(assignedUser);
    UserAccountBean ownerBean = (UserAccountBean) request.getSession().getAttribute("userBean");
    StudySubjectBean ssBean = ssdao.findByOid(studySubjectOid);
    StudyEventDefinitionBean sedBean = seddao.findByOid(se_oid);
    StudyBean studyBean = getStudy(sedBean.getStudyId());
    StudyEventBean seBean = (StudyEventBean) sedao.findByStudySubjectIdAndDefinitionIdAndOrdinal(ssBean.getId(), sedBean.getId(), Integer.valueOf(ordinal));
    String entityType = "studyEvent";
    DiscrepancyNoteBean parent = (DiscrepancyNoteBean) dndao.findByPK(Integer.valueOf(dn_id));
    if (!mayProceed(resolutionStatus, noteType, seBean, entityName, parent, ownerBean)) {
        httpStatus = org.springframework.http.HttpStatus.BAD_REQUEST;
        return new ResponseEntity(httpStatus);
    }
    if (!parent.isActive()) {
        saveFieldNotes(description, detailedNotes, seBean.getId(), entityType, studyBean, ownerBean, assignedUserBean, resolutionStatus, noteType, entityName);
        httpStatus = org.springframework.http.HttpStatus.OK;
    } else {
        createDiscrepancyNoteBean(description, detailedNotes, seBean.getId(), entityType, studyBean, ownerBean, assignedUserBean, parent.getId(), resolutionStatus, noteType, entityName);
        httpStatus = org.springframework.http.HttpStatus.OK;
    }
    return new ResponseEntity(httpStatus);
}
Also used : Locale(java.util.Locale) DiscrepancyNoteDAO(org.akaza.openclinica.dao.managestudy.DiscrepancyNoteDAO) StudyBean(org.akaza.openclinica.bean.managestudy.StudyBean) StudyEventDefinitionBean(org.akaza.openclinica.bean.managestudy.StudyEventDefinitionBean) StudyEventBean(org.akaza.openclinica.bean.managestudy.StudyEventBean) UserAccountDAO(org.akaza.openclinica.dao.login.UserAccountDAO) StudySubjectDAO(org.akaza.openclinica.dao.managestudy.StudySubjectDAO) ResponseEntity(org.springframework.http.ResponseEntity) StudyEventDefinitionDAO(org.akaza.openclinica.dao.managestudy.StudyEventDefinitionDAO) StudySubjectBean(org.akaza.openclinica.bean.managestudy.StudySubjectBean) DiscrepancyNoteBean(org.akaza.openclinica.bean.managestudy.DiscrepancyNoteBean) StudyEventDAO(org.akaza.openclinica.dao.managestudy.StudyEventDAO) UserAccountBean(org.akaza.openclinica.bean.login.UserAccountBean) RequestMapping(org.springframework.web.bind.annotation.RequestMapping)

Example 38 with DiscrepancyNoteDAO

use of org.akaza.openclinica.dao.managestudy.DiscrepancyNoteDAO in project OpenClinica by OpenClinica.

the class DiscrepancyNoteOutputServlet method populateRowsWithAttachedData.

private ArrayList<DiscrepancyNoteBean> populateRowsWithAttachedData(ArrayList<DiscrepancyNoteBean> noteRows) {
    Locale l = LocaleResolver.getLocale(request);
    resword = ResourceBundleProvider.getWordsBundle(l);
    resformat = ResourceBundleProvider.getFormatBundle(l);
    SimpleDateFormat sdf = new SimpleDateFormat(resformat.getString("date_format_string"), ResourceBundleProvider.getLocale());
    DiscrepancyNoteDAO dndao = new DiscrepancyNoteDAO(sm.getDataSource());
    StudySubjectDAO studySubjectDAO = new StudySubjectDAO(sm.getDataSource());
    StudyEventDAO sedao = new StudyEventDAO(sm.getDataSource());
    CRFVersionDAO cvdao = new CRFVersionDAO(sm.getDataSource());
    CRFDAO cdao = new CRFDAO(sm.getDataSource());
    StudyEventDefinitionDAO seddao = new StudyEventDefinitionDAO(sm.getDataSource());
    EventCRFDAO ecdao = new EventCRFDAO(sm.getDataSource());
    ItemDataDAO iddao = new ItemDataDAO(sm.getDataSource());
    ItemDAO idao = new ItemDAO(sm.getDataSource());
    StudyDAO studyDao = new StudyDAO(sm.getDataSource());
    ItemGroupMetadataDAO<String, ArrayList> igmdao = new ItemGroupMetadataDAO<String, ArrayList>(sm.getDataSource());
    ItemGroupDAO<String, ArrayList> igdao = new ItemGroupDAO<String, ArrayList>(sm.getDataSource());
    ArrayList<DiscrepancyNoteBean> allNotes = new ArrayList<DiscrepancyNoteBean>();
    for (int i = 0; i < noteRows.size(); i++) {
        DiscrepancyNoteBean dnb = noteRows.get(i);
        dnb.setCreatedDateString(dnb.getCreatedDate() == null ? "" : sdf.format(dnb.getCreatedDate()));
        if (dnb.getParentDnId() == 0) {
            ArrayList children = dndao.findAllByStudyAndParent(currentStudy, dnb.getId());
            children = children == null ? new ArrayList() : children;
            dnb.setNumChildren(children.size());
            dnb.setChildren(children);
            int lastDnId = dnb.getId();
            int lastChild = 0;
            for (int j = 0; j < children.size(); j++) {
                DiscrepancyNoteBean child = (DiscrepancyNoteBean) children.get(j);
                child.setCreatedDateString(child.getCreatedDate() == null ? "" : sdf.format(child.getCreatedDate()));
                child.setUpdatedDateString(child.getCreatedDate() != null ? sdf.format(child.getCreatedDate()) : "");
                if (child.getId() > lastDnId) {
                    lastDnId = child.getId();
                    lastChild = j;
                }
            }
            if (children.size() > 0) {
                DiscrepancyNoteBean lastdn = (DiscrepancyNoteBean) children.get(lastChild);
                //dnb.setResStatus(ResolutionStatus.get(lastdn.getResolutionStatusId()));
                /*
                     * The update date is the date created of the latest child
                     * note
                     */
                dnb.setUpdatedDate(lastdn.getCreatedDate());
                dnb.setUpdatedDateString(dnb.getUpdatedDate() != null ? sdf.format(dnb.getUpdatedDate()) : "");
            }
        }
        String entityType = dnb.getEntityType();
        if (dnb.getEntityId() > 0 && !entityType.equals("")) {
            AuditableEntityBean aeb = dndao.findEntity(dnb);
            dnb.setEntityName(aeb.getName());
            if (entityType.equalsIgnoreCase("subject")) {
                //                    allNotes.add(dnb);
                SubjectBean sb = (SubjectBean) aeb;
                StudySubjectBean ssb = studySubjectDAO.findBySubjectIdAndStudy(sb.getId(), currentStudy);
                dnb.setStudySub(ssb);
                dnb.setSubjectName(ssb.getLabel());
                String column = dnb.getColumn().trim();
                if (!StringUtil.isBlank(column)) {
                    if ("gender".equalsIgnoreCase(column)) {
                        dnb.setEntityValue(sb.getGender() + "");
                        dnb.setEntityName(resword.getString("gender"));
                    } else if ("date_of_birth".equals(column)) {
                        if (sb.getDateOfBirth() != null) {
                            dnb.setEntityValue(sb.getDateOfBirth().toString());
                        }
                        dnb.setEntityName(resword.getString("date_of_birth"));
                    } else if ("unique_identifier".equalsIgnoreCase(column)) {
                        dnb.setEntityName(resword.getString("unique_identifier"));
                        dnb.setEntityValue(sb.getUniqueIdentifier());
                    }
                }
            } else if (entityType.equalsIgnoreCase("studySub")) {
                //                    allNotes.add(dnb);
                StudySubjectBean ssb = (StudySubjectBean) aeb;
                dnb.setStudySub(ssb);
                dnb.setSubjectName(ssb.getLabel());
                String column = dnb.getColumn().trim();
                if (!StringUtil.isBlank(column)) {
                    if ("enrollment_date".equals(column)) {
                        if (ssb.getEnrollmentDate() != null) {
                            dnb.setEntityValue(ssb.getEnrollmentDate().toString());
                        }
                        dnb.setEntityName(resword.getString("enrollment_date"));
                    }
                }
            } else if (entityType.equalsIgnoreCase("eventCRF")) {
                StudyEventBean se = (StudyEventBean) sedao.findByPK(dnb.getEntityId());
                StudyEventDefinitionBean sedb = (StudyEventDefinitionBean) seddao.findByPK(se.getStudyEventDefinitionId());
                EventCRFBean ecb = (EventCRFBean) aeb;
                CRFVersionBean cvb = (CRFVersionBean) cvdao.findByPK(ecb.getCRFVersionId());
                CRFBean cb = (CRFBean) cdao.findByPK(cvb.getCrfId());
                dnb.setStageId(ecb.getStage().getId());
                dnb.setEntityName(cb.getName() + " (" + cvb.getName() + ")");
                StudySubjectBean ssub = (StudySubjectBean) studySubjectDAO.findByPK(ecb.getStudySubjectId());
                dnb.setStudySub(ssub);
                dnb.setSubjectName(ssub.getLabel());
                if (se != null) {
                    dnb.setEventStart(se.getDateStarted());
                    dnb.setEventName(se.getName());
                }
                dnb.setCrfName(cb.getName());
                String crfStatus = resword.getString(ecb.getStage().getNameRaw());
                if (crfStatus.equals("Invalid")) {
                    crfStatus = "";
                } else if (crfStatus.equals("Data Entry Complete")) {
                    crfStatus = "Complete";
                }
                dnb.setCrfStatus(crfStatus);
                String column = dnb.getColumn().trim();
                if (!StringUtil.isBlank(column)) {
                    if ("date_interviewed".equals(column)) {
                        if (ecb.getDateInterviewed() != null) {
                            dnb.setEntityValue(ecb.getDateInterviewed().toString());
                        }
                        dnb.setEntityName(resword.getString("date_interviewed"));
                    } else if ("interviewer_name".equals(column)) {
                        dnb.setEntityValue(ecb.getInterviewerName());
                        dnb.setEntityName(resword.getString("interviewer_name"));
                    }
                }
                dnb.setEvent(se);
                dnb.setStudyEventDefinitionBean(sedb);
            // }
            } else if (entityType.equalsIgnoreCase("studyEvent")) {
                //                    allNotes.add(dnb);
                StudyEventBean se = (StudyEventBean) sedao.findByPK(dnb.getEntityId());
                StudyEventDefinitionBean sedb = (StudyEventDefinitionBean) seddao.findByPK(se.getStudyEventDefinitionId());
                se.setName(sedb.getName());
                dnb.setEntityName(sedb.getName());
                StudySubjectBean ssub = (StudySubjectBean) studySubjectDAO.findByPK(se.getStudySubjectId());
                dnb.setStudySub(ssub);
                dnb.setEventStart(se.getDateStarted());
                dnb.setEventName(se.getName());
                dnb.setSubjectName(ssub.getLabel());
                String column = dnb.getColumn().trim();
                if (!StringUtil.isBlank(column)) {
                    if ("date_start".equals(column)) {
                        if (se.getDateStarted() != null) {
                            dnb.setEntityValue(se.getDateStarted().toString());
                        }
                        dnb.setEntityName(resword.getString("start_date"));
                    } else if ("date_end".equals(column)) {
                        if (se.getDateEnded() != null) {
                            dnb.setEntityValue(se.getDateEnded().toString());
                        }
                        dnb.setEntityName(resword.getString("end_date"));
                    } else if ("location".equals(column)) {
                        dnb.setEntityValue(se.getLocation());
                        dnb.setEntityName(resword.getString("location"));
                    }
                }
                dnb.setEvent(se);
                dnb.setStudyEventDefinitionBean(sedb);
            } else if (entityType.equalsIgnoreCase("itemData")) {
                ItemDataBean idb = (ItemDataBean) iddao.findByPK(dnb.getEntityId());
                ItemBean ib = (ItemBean) idao.findByPK(idb.getItemId());
                EventCRFBean ec = (EventCRFBean) ecdao.findByPK(idb.getEventCRFId());
                CRFVersionBean cvb = (CRFVersionBean) cvdao.findByPK(ec.getCRFVersionId());
                CRFBean cb = (CRFBean) cdao.findByPK(cvb.getCrfId());
                ItemGroupMetadataBean itemGroupMetadataBean = (ItemGroupMetadataBean) igmdao.findByItemAndCrfVersion(ib.getId(), cvb.getId());
                Boolean isRepeatForSure = itemGroupMetadataBean.isRepeatingGroup();
                if (isRepeatForSure) {
                    ItemGroupBean ig = (ItemGroupBean) igdao.findByPK(itemGroupMetadataBean.getItemGroupId());
                    dnb.setItemDataOrdinal(idb.getOrdinal());
                    dnb.setItemGroupName(ig.getName());
                }
                //                    allNotes.add(dnb);
                dnb.setStageId(ec.getStage().getId());
                dnb.setEntityName(ib.getName());
                dnb.setEntityValue(idb.getValue());
                StudyEventBean se = (StudyEventBean) sedao.findByPK(ec.getStudyEventId());
                StudyEventDefinitionBean sedb = (StudyEventDefinitionBean) seddao.findByPK(se.getStudyEventDefinitionId());
                se.setName(sedb.getName());
                StudySubjectBean ssub = (StudySubjectBean) studySubjectDAO.findByPK(ec.getStudySubjectId());
                dnb.setStudySub(ssub);
                dnb.setSubjectName(ssub.getLabel());
                dnb.setEventStart(se.getDateStarted());
                dnb.setEventName(se.getName());
                dnb.setCrfName(cb.getName());
                String crfStatus = resword.getString(ec.getStage().getNameRaw());
                if (crfStatus.equals("Invalid")) {
                    crfStatus = "";
                } else if (crfStatus.equals("Data Entry Complete")) {
                    crfStatus = "Complete";
                }
                dnb.setCrfStatus(crfStatus);
                dnb.setEvent(se);
                dnb.setStudyEventDefinitionBean(sedb);
            }
        }
        dnb.setStudy((StudyBean) studyDao.findByPK(dnb.getStudyId()));
        if (dnb.getParentDnId() == 0 && dnb.getChildren().size() > 0) {
            ArrayList<DiscrepancyNoteBean> children = dnb.getChildren();
            int childrenSize = children.size();
            for (int j = 0; j < childrenSize; j++) {
                DiscrepancyNoteBean child = children.get(j);
                child.setSubjectName(dnb.getSubjectName());
                child.setEventName(dnb.getEventName());
                child.setCrfName(dnb.getCrfName());
                child.setCrfStatus(dnb.getCrfStatus());
                child.setEntityName(dnb.getEntityName());
                child.setEntityValue(dnb.getEntityValue());
                child.setStudySub(dnb.getStudySub());
                child.setStudy(dnb.getStudy());
            }
        }
        allNotes.add(dnb);
    }
    return allNotes;
}
Also used : Locale(java.util.Locale) ArrayList(java.util.ArrayList) StudyEventDefinitionBean(org.akaza.openclinica.bean.managestudy.StudyEventDefinitionBean) StudyEventBean(org.akaza.openclinica.bean.managestudy.StudyEventBean) StudyEventDAO(org.akaza.openclinica.dao.managestudy.StudyEventDAO) StudyDAO(org.akaza.openclinica.dao.managestudy.StudyDAO) DiscrepancyNoteDAO(org.akaza.openclinica.dao.managestudy.DiscrepancyNoteDAO) CRFDAO(org.akaza.openclinica.dao.admin.CRFDAO) AuditableEntityBean(org.akaza.openclinica.bean.core.AuditableEntityBean) StudySubjectDAO(org.akaza.openclinica.dao.managestudy.StudySubjectDAO) CRFBean(org.akaza.openclinica.bean.admin.CRFBean) StudySubjectBean(org.akaza.openclinica.bean.managestudy.StudySubjectBean) StudyEventDefinitionDAO(org.akaza.openclinica.dao.managestudy.StudyEventDefinitionDAO) StudySubjectBean(org.akaza.openclinica.bean.managestudy.StudySubjectBean) DiscrepancyNoteBean(org.akaza.openclinica.bean.managestudy.DiscrepancyNoteBean) SimpleDateFormat(java.text.SimpleDateFormat)

Example 39 with DiscrepancyNoteDAO

use of org.akaza.openclinica.dao.managestudy.DiscrepancyNoteDAO in project OpenClinica by OpenClinica.

the class UpdateStudyEventServlet method processRequest.

@Override
public void processRequest() throws Exception {
    FormDiscrepancyNotes discNotes = null;
    FormProcessor fp = new FormProcessor(request);
    int studyEventId = fp.getInt(EVENT_ID, true);
    int studySubjectId = fp.getInt(STUDY_SUBJECT_ID, true);
    String module = fp.getString(MODULE);
    request.setAttribute(MODULE, module);
    String fromResolvingNotes = fp.getString("fromResolvingNotes", true);
    if (StringUtil.isBlank(fromResolvingNotes)) {
        session.removeAttribute(ViewNotesServlet.WIN_LOCATION);
        session.removeAttribute(ViewNotesServlet.NOTES_TABLE);
        checkStudyLocked(Page.MANAGE_STUDY, respage.getString("current_study_locked"));
        checkStudyFrozen(Page.MANAGE_STUDY, respage.getString("current_study_frozen"));
    }
    if (studyEventId == 0 || studySubjectId == 0) {
        addPageMessage(respage.getString("choose_a_study_event_to_edit"));
        request.setAttribute("id", new Integer(studySubjectId).toString());
        forwardPage(Page.VIEW_STUDY_SUBJECT_SERVLET);
        return;
    }
    StudySubjectDAO ssdao = new StudySubjectDAO(sm.getDataSource());
    StudySubjectBean ssub = null;
    if (studySubjectId > 0) {
        ssub = (StudySubjectBean) ssdao.findByPK(studySubjectId);
        request.setAttribute("studySubject", ssub);
        // for the workflow
        request.setAttribute("id", studySubjectId + "");
    // box, so it can
    // link back to view
    // study subject
    }
    // YW 11-07-2007, a study event could not be updated if its study
    // subject has been removed
    // Status s = ((StudySubjectBean)new
    // StudySubjectDAO(sm.getDataSource()).findByPK(studySubjectId)).getStatus();
    Status s = ssub.getStatus();
    if ("removed".equalsIgnoreCase(s.getName()) || "auto-removed".equalsIgnoreCase(s.getName())) {
        addPageMessage(resword.getString("study_event") + resterm.getString("could_not_be") + resterm.getString("updated") + "." + respage.getString("study_subject_has_been_deleted"));
        request.setAttribute("id", new Integer(studySubjectId).toString());
        forwardPage(Page.VIEW_STUDY_SUBJECT_SERVLET);
    }
    // YW
    request.setAttribute(STUDY_SUBJECT_ID, new Integer(studySubjectId).toString());
    StudyEventDAO sedao = new StudyEventDAO(sm.getDataSource());
    EventCRFDAO ecrfdao = new EventCRFDAO(sm.getDataSource());
    StudyEventBean studyEvent = (StudyEventBean) sedao.findByPK(studyEventId);
    studyEvent.setEventCRFs(ecrfdao.findAllByStudyEvent(studyEvent));
    // only owner, admins, and study director/coordinator can update
    // if (ub.getId() != studyEvent.getOwnerId()) {
    // if (!ub.isSysAdmin() &&
    // !currentRole.getRole().equals(Role.STUDYDIRECTOR)
    // && !currentRole.getRole().equals(Role.COORDINATOR)) {
    // addPageMessage(respage.getString("no_have_correct_privilege_current_study")
    // + respage.getString("change_study_contact_sysadmin"));
    // request.setAttribute("id", new Integer(studySubjectId).toString());
    // forwardPage(Page.VIEW_STUDY_SUBJECT_SERVLET);
    // return;
    // }
    // }
    // above removed tbh 11162007
    ArrayList statuses = SubjectEventStatus.toArrayList();
    // remove more statuses here, tbh, 092007
    // ### updates to status setting, below added tbh 102007
    // following pieces of logic to be added:
    /*
         * REMOVED can happen at any step, COMPLETED can happen if the Subject
         * Event is already complete, COMPLETED can also happen if all required
         * CRFs in the Subject Event are completed, LOCKED can occur when all
         * Event CRFs are completed, or not started, or removed, LOCKED/REMOVED
         * are only options, however, when the user is study director or study
         * coordinator SKIPPED/STOPPED? Additional rules spelled out on Nov 16
         * 2007: STOPPED should only be in the list of choices after IDE has
         * been started, i.e. not when SCHEDULED SKIPPED should only be in the
         * list before IDE has been started, i.e. when SCHEDULED reminder about
         * LOCKED happening only when CRFs are completed (not as in the
         * above...) if a status is LOCKED already, it should allow a user to
         * set the event back to COMPLETED
         */
    StudyDAO sdao = new StudyDAO(this.sm.getDataSource());
    StudyBean studyBean = (StudyBean) sdao.findByPK(ssub.getStudyId());
    checkRoleByUserAndStudy(ub, studyBean.getParentStudyId(), studyBean.getId());
    // To remove signed status from the list
    EventDefinitionCRFDAO edcdao = new EventDefinitionCRFDAO(sm.getDataSource());
    boolean removeSign = false;
    // DiscrepancyNoteDAO discDao = new
    // DiscrepancyNoteDAO(sm.getDataSource());
    ArrayList eventCrfs = studyEvent.getEventCRFs();
    for (int i = 0; i < eventCrfs.size(); i++) {
        EventCRFBean ecrf = (EventCRFBean) eventCrfs.get(i);
        EventDefinitionCRFBean edcBean = edcdao.findByStudyEventIdAndCRFVersionId(studyBean, studyEventId, ecrf.getCRFVersionId());
        if (ecrf.getStage().equals(DataEntryStage.INITIAL_DATA_ENTRY) || ecrf.getStage().equals(DataEntryStage.INITIAL_DATA_ENTRY_COMPLETE) && edcBean.isDoubleEntry() == true) {
            removeSign = true;
            break;
        }
    }
    if (currentRole.isResearchAssistant()) {
        removeSign = true;
    }
    if (currentRole.isResearchAssistant2()) {
        removeSign = true;
    }
    if (removeSign == true || !currentRole.isInvestigator()) {
        statuses.remove(SubjectEventStatus.SIGNED);
    }
    /*
         * if(!studyEvent.getSubjectEventStatus().equals(SubjectEventStatus.
         * DATA_ENTRY_STARTED)) {
         * statuses.remove(SubjectEventStatus.DATA_ENTRY_STARTED);
         * //statuses.remove(SubjectEventStatus.SKIPPED); // per new rule
         * 11-2007 }
         */
    if (!studyEvent.getSubjectEventStatus().equals(SubjectEventStatus.NOT_SCHEDULED)) {
        statuses.remove(SubjectEventStatus.NOT_SCHEDULED);
    }
    if (!studyEvent.getSubjectEventStatus().equals(SubjectEventStatus.SCHEDULED)) {
        // can't lock a non-completed CRF, but removed above
        statuses.remove(SubjectEventStatus.SCHEDULED);
    // statuses.remove(SubjectEventStatus.SKIPPED);
    // addl rule: skipped should only be present before data starts
    // being entered
    }
    if (studyEvent.getSubjectEventStatus().equals(SubjectEventStatus.DATA_ENTRY_STARTED)) {
        statuses.remove(SubjectEventStatus.SKIPPED);
    }
    ArrayList getECRFs = studyEvent.getEventCRFs();
    // above removed tbh 102007, require to get all definitions, no matter
    // if they are filled in or now
    EventDefinitionCRFDAO edefcrfdao = new EventDefinitionCRFDAO(sm.getDataSource());
    ArrayList getAllECRFs = (ArrayList) edefcrfdao.findAllByDefinition(studyBean, studyEvent.getStudyEventDefinitionId());
    // does the study event have all complete CRFs which are required?
    logger.debug("found number of ecrfs: " + getAllECRFs.size());
    // may not be populated, only entered crfs seem to ping the list
    for (int u = 0; u < getAllECRFs.size(); u++) {
        EventDefinitionCRFBean ecrfBean = (EventDefinitionCRFBean) getAllECRFs.get(u);
        //
        logger.debug("found number of existing ecrfs: " + getECRFs.size());
        if (getECRFs.size() == 0) {
            statuses.remove(SubjectEventStatus.COMPLETED);
            statuses.remove(SubjectEventStatus.LOCKED);
        }
        // otherwise...
        for (int uv = 0; uv < getECRFs.size(); uv++) {
            EventCRFBean existingBean = (EventCRFBean) getECRFs.get(uv);
            logger.debug("***** found: " + existingBean.getCRFVersionId() + " " + existingBean.getCrf().getId() + " " + existingBean.getCrfVersion().getName() + " " + existingBean.getStatus().getName() + " " + existingBean.getStage().getName());
            logger.debug("***** comparing above to ecrfBean.DefaultVersionID: " + ecrfBean.getDefaultVersionId());
            // this is addressed in the if-clause above
            if (!existingBean.getStatus().equals(Status.UNAVAILABLE) && edefcrfdao.isRequiredInDefinition(existingBean.getCRFVersionId(), studyEvent)) {
                logger.debug("found that " + existingBean.getCrfVersion().getName() + " is required...");
                // that is, it's not completed but required to complete
                statuses.remove(SubjectEventStatus.COMPLETED);
                statuses.remove(SubjectEventStatus.LOCKED);
            // per new rule above 11-16-2007
            }
        // }
        }
    }
    // below added 092007, tbh, task #1390
    if (!ub.isSysAdmin() && !currentRole.getRole().equals(Role.STUDYDIRECTOR) && !currentRole.getRole().equals(Role.COORDINATOR)) {
        statuses.remove(SubjectEventStatus.LOCKED);
    }
    // scheduled
    if (studyEvent.getSubjectEventStatus().equals(SubjectEventStatus.DATA_ENTRY_STARTED)) {
        statuses.remove(SubjectEventStatus.NOT_SCHEDULED);
        statuses.remove(SubjectEventStatus.SCHEDULED);
    }
    // ### tbh, above modified 102007
    request.setAttribute("statuses", statuses);
    String action = fp.getString("action");
    StudyEventDefinitionDAO seddao = new StudyEventDefinitionDAO(sm.getDataSource());
    StudyEventDefinitionBean sed = (StudyEventDefinitionBean) seddao.findByPK(studyEvent.getStudyEventDefinitionId());
    request.setAttribute(EVENT_DEFINITION_BEAN, sed);
    if (action.equalsIgnoreCase("submit")) {
        discNotes = (FormDiscrepancyNotes) session.getAttribute(AddNewSubjectServlet.FORM_DISCREPANCY_NOTES_NAME);
        DiscrepancyValidator v = new DiscrepancyValidator(request, discNotes);
        SubjectEventStatus ses = SubjectEventStatus.get(fp.getInt(SUBJECT_EVENT_STATUS_ID));
        studyEvent.setSubjectEventStatus(ses);
        EventCRFDAO ecdao = new EventCRFDAO(sm.getDataSource());
        ArrayList<EventCRFBean> eventCRFs = ecdao.findAllByStudyEvent(studyEvent);
        if (ses.equals(SubjectEventStatus.SKIPPED) || ses.equals(SubjectEventStatus.STOPPED)) {
            studyEvent.setStatus(Status.UNAVAILABLE);
            for (int i = 0; i < eventCRFs.size(); i++) {
                EventCRFBean ecb = eventCRFs.get(i);
                ecb.setOldStatus(ecb.getStatus());
                ecb.setStatus(Status.UNAVAILABLE);
                ecb.setUpdater(ub);
                ecb.setUpdatedDate(new Date());
                ecdao.update(ecb);
            }
        } else {
            for (int i = 0; i < eventCRFs.size(); i++) {
                EventCRFBean ecb = eventCRFs.get(i);
                ecb.setUpdater(ub);
                ecb.setUpdatedDate(new Date());
                ecdao.update(ecb);
            }
        }
        // YW 3-12-2008, 2220 fix
        String strEnd = fp.getDateTimeInputString(INPUT_ENDDATE_PREFIX);
        String strEndScheduled = fp.getDateTimeInputString(INPUT_ENDDATE_PREFIX);
        Date start = fp.getDateTime(INPUT_STARTDATE_PREFIX);
        Date end = null;
        v.addValidation(INPUT_STARTDATE_PREFIX, Validator.IS_DATE_TIME);
        v.alwaysExecuteLastValidation(INPUT_STARTDATE_PREFIX);
        if (!strEndScheduled.equals("")) {
            v.addValidation(INPUT_ENDDATE_PREFIX, Validator.IS_DATE_TIME);
            v.alwaysExecuteLastValidation(INPUT_ENDDATE_PREFIX);
        }
        //     v.addValidation(INPUT_LOCATION, Validator.NO_BLANKS); Disable validation on location, location can be empty when updating a study event
        HashMap errors = v.validate();
        // YW, 3-12-2008, 2220 fix <<
        if (!strEnd.equals("") && !errors.containsKey(INPUT_STARTDATE_PREFIX) && !errors.containsKey(INPUT_ENDDATE_PREFIX)) {
            end = fp.getDateTime(INPUT_ENDDATE_PREFIX);
            if (!fp.getString(INPUT_STARTDATE_PREFIX + "Date").equals(fp.getString(INPUT_ENDDATE_PREFIX + "Date"))) {
                if (end.before(start)) {
                    v.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)) {
                        v.addError(errors, INPUT_ENDDATE_PREFIX, resexception.getString("input_provided_not_occure_after_previous_start_date_time"));
                    }
                }
            }
        }
        if (!errors.isEmpty()) {
            setInputMessages(errors);
            String[] prefixes = { INPUT_STARTDATE_PREFIX, INPUT_ENDDATE_PREFIX };
            fp.setCurrentDateTimeValuesAsPreset(prefixes);
            setPresetValues(fp.getPresetValues());
            studyEvent.setLocation(fp.getString(INPUT_LOCATION));
            request.setAttribute("changeDate", fp.getString("changeDate"));
            request.setAttribute(EVENT_BEAN, studyEvent);
            forwardPage(Page.UPDATE_STUDY_EVENT);
        } else if (studyEvent.getSubjectEventStatus().isSigned()) {
            // Checks if the status is signed
            // -----------------
            request.setAttribute(STUDY_SUBJECT_ID, new Integer(studySubjectId).toString());
            if (fp.getString(INPUT_STARTDATE_PREFIX + "Hour").equals("-1") && fp.getString(INPUT_STARTDATE_PREFIX + "Minute").equals("-1") && fp.getString(INPUT_STARTDATE_PREFIX + "Half").equals("")) {
                studyEvent.setStartTimeFlag(false);
            } else {
                studyEvent.setStartTimeFlag(true);
            }
            studyEvent.setDateStarted(start);
            if (!strEnd.equals("")) {
                studyEvent.setDateEnded(end);
                if (fp.getString(INPUT_ENDDATE_PREFIX + "Hour").equals("-1") && fp.getString(INPUT_ENDDATE_PREFIX + "Minute").equals("-1") && fp.getString(INPUT_ENDDATE_PREFIX + "Half").equals("")) {
                    studyEvent.setEndTimeFlag(false);
                } else {
                    studyEvent.setEndTimeFlag(true);
                }
            }
            studyEvent.setLocation(fp.getString(INPUT_LOCATION));
            studyEvent.setStudyEventDefinition(sed);
            // -------------------
            ssdao = new StudySubjectDAO(sm.getDataSource());
            StudySubjectBean ssb = (StudySubjectBean) ssdao.findByPK(studyEvent.getStudySubjectId());
            ecdao = new EventCRFDAO(sm.getDataSource());
            eventCRFs = ecdao.findAllByStudyEvent(studyEvent);
            ArrayList<Boolean> doRuleSetsExist = new ArrayList<Boolean>();
            RuleSetDAO ruleSetDao = new RuleSetDAO(sm.getDataSource());
            StudyBean study = (StudyBean) sdao.findByPK(ssb.getStudyId());
            ArrayList eventDefinitionCRFs = (ArrayList) edcdao.findAllActiveByEventDefinitionId(study, studyEvent.getStudyEventDefinitionId());
            ArrayList uncompletedEventDefinitionCRFs = getUncompletedCRFs(eventDefinitionCRFs, eventCRFs);
            populateUncompletedCRFsWithCRFAndVersions(uncompletedEventDefinitionCRFs);
            ArrayList displayEventCRFs = ViewStudySubjectServlet.getDisplayEventCRFs(sm.getDataSource(), eventCRFs, eventDefinitionCRFs, ub, currentRole, studyEvent.getSubjectEventStatus(), study);
            request.setAttribute("studySubject", ssb);
            request.setAttribute("uncompletedEventDefinitionCRFs", uncompletedEventDefinitionCRFs);
            request.setAttribute("displayEventCRFs", displayEventCRFs);
            request.setAttribute(EVENT_BEAN, studyEvent);
            session.setAttribute("eventSigned", studyEvent);
            DiscrepancyNoteUtil discNoteUtil = new DiscrepancyNoteUtil();
            DisplayStudyEventBean displayEvBean = new DisplayStudyEventBean();
            List<DisplayStudyEventBean> displayEvents = new ArrayList<DisplayStudyEventBean>();
            // Set up a Map for the JSP view, mapping the eventCRFId to
            // another Map: the
            // inner Map maps the resolution status name to the number of
            // notes for that
            // eventCRF id, as in New --> 2
            displayEvBean.setStudyEvent(studyEvent);
            displayEvents.add(displayEvBean);
            // Don't filter for res status or disc note type; disc note
            // beans are returned with eventCRFId set
            discNoteUtil.injectParentDiscNotesIntoDisplayStudyEvents(displayEvents, new HashSet(), sm.getDataSource(), 0);
            Map discNoteByEventCRFid = discNoteUtil.createDiscNoteMapByEventCRF(displayEvents);
            request.setAttribute("discNoteByEventCRFid", discNoteByEventCRFid);
            forwardPage(Page.UPDATE_STUDY_EVENT_SIGNED);
        } else {
            logger.debug("no validation error");
            // YW 08-17-2007 << update start_time_flag column
            if (fp.getString(INPUT_STARTDATE_PREFIX + "Hour").equals("-1") && fp.getString(INPUT_STARTDATE_PREFIX + "Minute").equals("-1") && fp.getString(INPUT_STARTDATE_PREFIX + "Half").equals("")) {
                studyEvent.setStartTimeFlag(false);
            } else {
                studyEvent.setStartTimeFlag(true);
            }
            // YW >>
            studyEvent.setDateStarted(start);
            // YW, 3-12-2008, 2220 fix which adding End datetime <<
            if (!strEnd.equals("")) {
                studyEvent.setDateEnded(end);
                if (fp.getString(INPUT_ENDDATE_PREFIX + "Hour").equals("-1") && fp.getString(INPUT_ENDDATE_PREFIX + "Minute").equals("-1") && fp.getString(INPUT_ENDDATE_PREFIX + "Half").equals("")) {
                    studyEvent.setEndTimeFlag(false);
                } else {
                    studyEvent.setEndTimeFlag(true);
                }
            }
            // YW >>
            studyEvent.setLocation(fp.getString(INPUT_LOCATION));
            logger.debug("update study event...");
            studyEvent.setUpdater(ub);
            studyEvent.setUpdatedDate(new Date());
            StudyEventBean updatedStudyEvent = (StudyEventBean) sedao.update(studyEvent);
            // save discrepancy notes into DB
            FormDiscrepancyNotes fdn = (FormDiscrepancyNotes) session.getAttribute(AddNewSubjectServlet.FORM_DISCREPANCY_NOTES_NAME);
            DiscrepancyNoteDAO dndao = new DiscrepancyNoteDAO(sm.getDataSource());
            AddNewSubjectServlet.saveFieldNotes(INPUT_LOCATION, fdn, dndao, studyEvent.getId(), "studyEvent", currentStudy);
            AddNewSubjectServlet.saveFieldNotes(INPUT_STARTDATE_PREFIX, fdn, dndao, studyEvent.getId(), "studyEvent", currentStudy);
            AddNewSubjectServlet.saveFieldNotes(INPUT_ENDDATE_PREFIX, fdn, dndao, studyEvent.getId(), "studyEvent", currentStudy);
            //       getRuleSetService().runRulesInBeanProperty(createRuleSet(ssub,sed),currentStudy,ub,request,ssub);
            addPageMessage(respage.getString("study_event_updated"));
            request.setAttribute("id", new Integer(studySubjectId).toString());
            session.removeAttribute(AddNewSubjectServlet.FORM_DISCREPANCY_NOTES_NAME);
            forwardPage(Page.VIEW_STUDY_SUBJECT_SERVLET);
        // FORWARD SHOULD BE TO THE NEW PAGE
        }
    } else if (action.equalsIgnoreCase("confirm")) {
        // confirming the signed
        // status
        String username = request.getParameter("j_user");
        String password = request.getParameter("j_pass");
        //tring encodedUserPass = org.akaza.openclinica.core.SecurityManager.getInstance().encrytPassword(password);
        SecurityManager securityManager = ((SecurityManager) SpringServletAccess.getApplicationContext(context).getBean("securityManager"));
        UserAccountBean ub = (UserAccountBean) session.getAttribute("userBean");
        StudyEventBean seb = (StudyEventBean) session.getAttribute("eventSigned");
        if (securityManager.verifyPassword(password, getUserDetails()) && ub.getName().equals(username)) {
            seb.setUpdater(ub);
            seb.setUpdatedDate(new Date());
            sedao.update(seb);
            // If all the StudyEvents become signed we will make the
            // StudySubject signed as well
            List studyEvents = sedao.findAllByStudySubject(ssub);
            boolean allSigned = true;
            for (Iterator iterator = studyEvents.iterator(); iterator.hasNext(); ) {
                StudyEventBean temp = (StudyEventBean) iterator.next();
                if (!temp.getSubjectEventStatus().equals(SubjectEventStatus.SIGNED)) {
                    allSigned = false;
                    break;
                }
            }
            if (allSigned) {
                logger.debug("Signing StudySubject [" + ssub.getSubjectId() + "]");
                ssub.setStatus(Status.SIGNED);
                ssub.setUpdater(ub);
                ssdao.update(ssub);
            }
            // save discrepancy notes into DB
            FormDiscrepancyNotes fdn = (FormDiscrepancyNotes) session.getAttribute(AddNewSubjectServlet.FORM_DISCREPANCY_NOTES_NAME);
            DiscrepancyNoteDAO dndao = new DiscrepancyNoteDAO(sm.getDataSource());
            AddNewSubjectServlet.saveFieldNotes(INPUT_LOCATION, fdn, dndao, studyEvent.getId(), "studyEvent", currentStudy);
            AddNewSubjectServlet.saveFieldNotes(INPUT_STARTDATE_PREFIX, fdn, dndao, studyEvent.getId(), "studyEvent", currentStudy);
            AddNewSubjectServlet.saveFieldNotes(INPUT_ENDDATE_PREFIX, fdn, dndao, studyEvent.getId(), "studyEvent", currentStudy);
            session.removeAttribute("eventSigned");
            request.setAttribute("id", new Integer(studySubjectId).toString());
            addPageMessage(respage.getString("study_event_updated"));
            forwardPage(Page.VIEW_STUDY_SUBJECT_SERVLET);
        } else {
            request.setAttribute(STUDY_SUBJECT_ID, new Integer(studySubjectId).toString());
            request.setAttribute("studyEvent", seb);
            // -------------------
            ssdao = new StudySubjectDAO(sm.getDataSource());
            StudySubjectBean ssb = (StudySubjectBean) ssdao.findByPK(studyEvent.getStudySubjectId());
            // prepare to figure out what the display should look like
            EventCRFDAO ecdao = new EventCRFDAO(sm.getDataSource());
            ArrayList<EventCRFBean> eventCRFs = ecdao.findAllByStudyEvent(studyEvent);
            ArrayList<Boolean> doRuleSetsExist = new ArrayList<Boolean>();
            RuleSetDAO ruleSetDao = new RuleSetDAO(sm.getDataSource());
            StudyBean study = (StudyBean) sdao.findByPK(ssb.getStudyId());
            ArrayList eventDefinitionCRFs = (ArrayList) edcdao.findAllActiveByEventDefinitionId(study, studyEvent.getStudyEventDefinitionId());
            ArrayList uncompletedEventDefinitionCRFs = getUncompletedCRFs(eventDefinitionCRFs, eventCRFs);
            populateUncompletedCRFsWithCRFAndVersions(uncompletedEventDefinitionCRFs);
            ArrayList displayEventCRFs = ViewStudySubjectServlet.getDisplayEventCRFs(sm.getDataSource(), eventCRFs, eventDefinitionCRFs, ub, currentRole, studyEvent.getSubjectEventStatus(), study);
            request.setAttribute("studySubject", ssb);
            request.setAttribute("uncompletedEventDefinitionCRFs", uncompletedEventDefinitionCRFs);
            request.setAttribute("displayEventCRFs", displayEventCRFs);
            // ------------------
            request.setAttribute("studyEvent", session.getAttribute("eventSigned"));
            addPageMessage(restext.getString("password_match"));
            forwardPage(Page.UPDATE_STUDY_EVENT_SIGNED);
        }
    } else {
        logger.debug("no action, go to update page");
        DiscrepancyNoteDAO discrepancyNoteDAO = new DiscrepancyNoteDAO(sm.getDataSource());
        StudySubjectBean studySubjectBean = (StudySubjectBean) ssdao.findByPK(studyEvent.getStudySubjectId());
        int studyId = studySubjectBean.getStudyId();
        boolean subjectStudyIsCurrentStudy = studyId == currentStudy.getId();
        boolean isParentStudy = studyBean.getParentStudyId() < 1;
        ArrayList<DiscrepancyNoteBean> allNotesforSubjectAndEvent = new ArrayList<DiscrepancyNoteBean>();
        if (subjectStudyIsCurrentStudy && isParentStudy) {
            allNotesforSubjectAndEvent = discrepancyNoteDAO.findAllStudyEventByStudyAndId(currentStudy, studySubjectBean.getId());
        } else {
            // findAllStudyEventByStudiesAndSubjectId
            if (!isParentStudy) {
                StudyBean stParent = (StudyBean) sdao.findByPK(studyBean.getParentStudyId());
                allNotesforSubjectAndEvent = discrepancyNoteDAO.findAllStudyEventByStudiesAndSubjectId(stParent, studyBean, studySubjectBean.getId());
            } else {
                allNotesforSubjectAndEvent = discrepancyNoteDAO.findAllStudyEventByStudiesAndSubjectId(currentStudy, studyBean, studySubjectBean.getId());
            }
        }
        if (!allNotesforSubjectAndEvent.isEmpty()) {
            setRequestAttributesForNotes(allNotesforSubjectAndEvent);
        }
        HashMap presetValues = new HashMap();
        // YW 08-17-2007 <<
        if (studyEvent.getStartTimeFlag() == true) {
            Calendar c = new GregorianCalendar();
            c.setTime(studyEvent.getDateStarted());
            presetValues.put(INPUT_STARTDATE_PREFIX + "Hour", new Integer(c.get(Calendar.HOUR_OF_DAY)));
            presetValues.put(INPUT_STARTDATE_PREFIX + "Minute", new Integer(c.get(Calendar.MINUTE)));
            // necessary.
            switch(c.get(Calendar.AM_PM)) {
                case 0:
                    presetValues.put(INPUT_STARTDATE_PREFIX + "Half", "am");
                    break;
                case 1:
                    presetValues.put(INPUT_STARTDATE_PREFIX + "Half", "pm");
                    break;
                default:
                    presetValues.put(INPUT_STARTDATE_PREFIX + "Half", "");
                    break;
            }
        } else {
            presetValues.put(INPUT_STARTDATE_PREFIX + "Hour", new Integer(-1));
            presetValues.put(INPUT_STARTDATE_PREFIX + "Minute", new Integer(-1));
            presetValues.put(INPUT_STARTDATE_PREFIX + "Half", "");
        }
        // YW >>
        String dateValue = local_df.format(studyEvent.getDateStarted());
        presetValues.put(INPUT_STARTDATE_PREFIX + "Date", dateValue);
        // YW 3-12-2008, add end datetime for 2220 fix<<
        presetValues.put(INPUT_ENDDATE_PREFIX + "Hour", new Integer(-1));
        presetValues.put(INPUT_ENDDATE_PREFIX + "Minute", new Integer(-1));
        presetValues.put(INPUT_ENDDATE_PREFIX + "Half", "");
        if (studyEvent.getDateEnded() != null) {
            if (studyEvent.getEndTimeFlag() == true) {
                Calendar c = new GregorianCalendar();
                c.setTime(studyEvent.getDateEnded());
                presetValues.put(INPUT_ENDDATE_PREFIX + "Hour", new Integer(c.get(Calendar.HOUR_OF_DAY)));
                presetValues.put(INPUT_ENDDATE_PREFIX + "Minute", new Integer(c.get(Calendar.MINUTE)));
                // necessary.
                switch(c.get(Calendar.AM_PM)) {
                    case 0:
                        presetValues.put(INPUT_ENDDATE_PREFIX + "Half", "am");
                        break;
                    case 1:
                        presetValues.put(INPUT_ENDDATE_PREFIX + "Half", "pm");
                        break;
                    default:
                        presetValues.put(INPUT_ENDDATE_PREFIX + "Half", "");
                        break;
                }
            }
            presetValues.put(INPUT_ENDDATE_PREFIX + "Date", local_df.format(studyEvent.getDateEnded()));
        }
        // YW >>
        setPresetValues(presetValues);
        request.setAttribute("studyEvent", studyEvent);
        request.setAttribute("studySubject", studySubjectBean);
        discNotes = new FormDiscrepancyNotes();
        session.setAttribute(AddNewSubjectServlet.FORM_DISCREPANCY_NOTES_NAME, discNotes);
        forwardPage(Page.UPDATE_STUDY_EVENT);
    }
// else
}
Also used : RuleSetDAO(org.akaza.openclinica.dao.rule.RuleSetDAO) SecurityManager(org.akaza.openclinica.core.SecurityManager) HashMap(java.util.HashMap) ArrayList(java.util.ArrayList) StudyEventDefinitionBean(org.akaza.openclinica.bean.managestudy.StudyEventDefinitionBean) StudyEventBean(org.akaza.openclinica.bean.managestudy.StudyEventBean) DisplayStudyEventBean(org.akaza.openclinica.bean.managestudy.DisplayStudyEventBean) SubjectEventStatus(org.akaza.openclinica.bean.core.SubjectEventStatus) EventCRFBean(org.akaza.openclinica.bean.submit.EventCRFBean) StudyEventDAO(org.akaza.openclinica.dao.managestudy.StudyEventDAO) UserAccountBean(org.akaza.openclinica.bean.login.UserAccountBean) Iterator(java.util.Iterator) List(java.util.List) ArrayList(java.util.ArrayList) DiscrepancyNoteUtil(org.akaza.openclinica.service.DiscrepancyNoteUtil) StudyDAO(org.akaza.openclinica.dao.managestudy.StudyDAO) EventCRFDAO(org.akaza.openclinica.dao.submit.EventCRFDAO) HashSet(java.util.HashSet) Status(org.akaza.openclinica.bean.core.Status) SubjectEventStatus(org.akaza.openclinica.bean.core.SubjectEventStatus) DiscrepancyNoteDAO(org.akaza.openclinica.dao.managestudy.DiscrepancyNoteDAO) FormDiscrepancyNotes(org.akaza.openclinica.control.form.FormDiscrepancyNotes) FormProcessor(org.akaza.openclinica.control.form.FormProcessor) StudyBean(org.akaza.openclinica.bean.managestudy.StudyBean) GregorianCalendar(java.util.GregorianCalendar) Calendar(java.util.Calendar) GregorianCalendar(java.util.GregorianCalendar) EventDefinitionCRFDAO(org.akaza.openclinica.dao.managestudy.EventDefinitionCRFDAO) StudySubjectDAO(org.akaza.openclinica.dao.managestudy.StudySubjectDAO) Date(java.util.Date) DiscrepancyValidator(org.akaza.openclinica.control.form.DiscrepancyValidator) DisplayStudyEventBean(org.akaza.openclinica.bean.managestudy.DisplayStudyEventBean) StudySubjectBean(org.akaza.openclinica.bean.managestudy.StudySubjectBean) StudyEventDefinitionDAO(org.akaza.openclinica.dao.managestudy.StudyEventDefinitionDAO) DiscrepancyNoteBean(org.akaza.openclinica.bean.managestudy.DiscrepancyNoteBean) EventDefinitionCRFBean(org.akaza.openclinica.bean.managestudy.EventDefinitionCRFBean) DisplayEventDefinitionCRFBean(org.akaza.openclinica.bean.managestudy.DisplayEventDefinitionCRFBean) Map(java.util.Map) HashMap(java.util.HashMap)

Example 40 with DiscrepancyNoteDAO

use of org.akaza.openclinica.dao.managestudy.DiscrepancyNoteDAO in project OpenClinica by OpenClinica.

the class UpdateStudySubjectServlet method processRequest.

@Override
public void processRequest() throws Exception {
    FormDiscrepancyNotes discNotes = null;
    SubjectDAO sdao = new SubjectDAO(sm.getDataSource());
    StudySubjectDAO subdao = new StudySubjectDAO(sm.getDataSource());
    FormProcessor fp = new FormProcessor(request);
    String fromResolvingNotes = fp.getString("fromResolvingNotes", true);
    if (StringUtil.isBlank(fromResolvingNotes)) {
        session.removeAttribute(ViewNotesServlet.WIN_LOCATION);
        session.removeAttribute(ViewNotesServlet.NOTES_TABLE);
        checkStudyLocked(Page.LIST_STUDY_SUBJECTS_SERVLET, respage.getString("current_study_locked"));
        checkStudyFrozen(Page.LIST_STUDY_SUBJECTS_SERVLET, respage.getString("current_study_frozen"));
    }
    // studySubjectId
    int studySubId = fp.getInt("id", true);
    if (studySubId == 0) {
        addPageMessage(respage.getString("please_choose_study_subject_to_edit"));
        forwardPage(Page.LIST_STUDY_SUBJECTS);
    } else {
        String action = fp.getString("action", true);
        if (StringUtil.isBlank(action)) {
            addPageMessage(respage.getString("no_action_specified"));
            forwardPage(Page.LIST_STUDY_SUBJECTS);
            return;
        }
        StudySubjectBean sub = (StudySubjectBean) subdao.findByPK(studySubId);
        StudyGroupClassDAO sgcdao = new StudyGroupClassDAO(sm.getDataSource());
        StudyGroupDAO sgdao = new StudyGroupDAO(sm.getDataSource());
        SubjectGroupMapDAO sgmdao = new SubjectGroupMapDAO(sm.getDataSource());
        ArrayList groupMaps = (ArrayList) sgmdao.findAllByStudySubject(studySubId);
        HashMap gMaps = new HashMap();
        for (int i = 0; i < groupMaps.size(); i++) {
            SubjectGroupMapBean groupMap = (SubjectGroupMapBean) groupMaps.get(i);
            gMaps.put(new Integer(groupMap.getStudyGroupClassId()), groupMap);
        }
        StudyDAO stdao = new StudyDAO(sm.getDataSource());
        ArrayList classes = new ArrayList();
        if (!"submit".equalsIgnoreCase(action)) {
            // YW <<
            int parentStudyId = currentStudy.getParentStudyId();
            if (parentStudyId > 0) {
                StudyBean parentStudy = (StudyBean) stdao.findByPK(parentStudyId);
                classes = sgcdao.findAllActiveByStudy(parentStudy);
            } else {
                classes = sgcdao.findAllActiveByStudy(currentStudy);
            }
            // YW >>
            for (int i = 0; i < classes.size(); i++) {
                StudyGroupClassBean group = (StudyGroupClassBean) classes.get(i);
                ArrayList studyGroups = sgdao.findAllByGroupClass(group);
                group.setStudyGroups(studyGroups);
                SubjectGroupMapBean gMap = (SubjectGroupMapBean) gMaps.get(new Integer(group.getId()));
                if (gMap != null) {
                    group.setStudyGroupId(gMap.getStudyGroupId());
                    group.setGroupNotes(gMap.getNotes());
                }
            }
            session.setAttribute("groups", classes);
        }
        if ("show".equalsIgnoreCase(action)) {
            session.setAttribute("studySub", sub);
            // below added tbh 092007
            String enrollDateStr = sub.getEnrollmentDate() != null ? local_df.format(sub.getEnrollmentDate()) : "";
            session.setAttribute("enrollDateStr", enrollDateStr);
            // above added tbh 092007
            discNotes = new FormDiscrepancyNotes();
            session.setAttribute(AddNewSubjectServlet.FORM_DISCREPANCY_NOTES_NAME, discNotes);
            forwardPage(Page.UPDATE_STUDY_SUBJECT);
        } else if ("confirm".equalsIgnoreCase(action)) {
            confirm(sgdao);
        } else if ("submit".equalsIgnoreCase(action)) {
            // submit to DB
            StudySubjectBean subject = (StudySubjectBean) session.getAttribute("studySub");
            subject.setUpdater(ub);
            subdao.update(subject);
            // save discrepancy notes into DB
            FormDiscrepancyNotes fdn = (FormDiscrepancyNotes) session.getAttribute(AddNewSubjectServlet.FORM_DISCREPANCY_NOTES_NAME);
            DiscrepancyNoteDAO dndao = new DiscrepancyNoteDAO(sm.getDataSource());
            AddNewSubjectServlet.saveFieldNotes("enrollmentDate", fdn, dndao, subject.getId(), "studySub", currentStudy);
            ArrayList groups = (ArrayList) session.getAttribute("groups");
            if (!groups.isEmpty()) {
                for (int i = 0; i < groups.size(); i++) {
                    StudyGroupClassBean sgc = (StudyGroupClassBean) groups.get(i);
                    /*We will be allowing users to remove a subject from all groups. Issue-4524*/
                    if (sgc.getStudyGroupId() == 0) {
                        Collection subjectGroups = sgmdao.findAllByStudySubject(subject.getId());
                        for (Iterator it = subjectGroups.iterator(); it.hasNext(); ) {
                            sgmdao.deleteTestGroupMap(((SubjectGroupMapBean) it.next()).getId());
                        }
                    } else {
                        SubjectGroupMapBean sgm = new SubjectGroupMapBean();
                        SubjectGroupMapBean gMap = (SubjectGroupMapBean) gMaps.get(new Integer(sgc.getId()));
                        sgm.setStudyGroupId(sgc.getStudyGroupId());
                        sgm.setNotes(sgc.getGroupNotes());
                        sgm.setStudyGroupClassId(sgc.getId());
                        sgm.setStudySubjectId(subject.getId());
                        sgm.setStatus(Status.AVAILABLE);
                        if (sgm.getStudyGroupId() > 0) {
                            if (gMap != null && gMap.getId() > 0) {
                                sgm.setUpdater(ub);
                                sgm.setId(gMap.getId());
                                sgmdao.update(sgm);
                            } else {
                                sgm.setOwner(ub);
                                sgmdao.create(sgm);
                            }
                        }
                    }
                }
            }
            addPageMessage(respage.getString("study_subject_updated_succesfully"));
            session.removeAttribute("studySub");
            session.removeAttribute("groups");
            session.removeAttribute("enrollDateStr");
            session.removeAttribute(AddNewSubjectServlet.FORM_DISCREPANCY_NOTES_NAME);
            request.setAttribute("id", new Integer(studySubId).toString());
            forwardPage(Page.VIEW_STUDY_SUBJECT_SERVLET);
        } else {
            addPageMessage(respage.getString("no_action_specified"));
            forwardPage(Page.LIST_STUDY_SUBJECTS);
            return;
        }
    }
}
Also used : DiscrepancyNoteDAO(org.akaza.openclinica.dao.managestudy.DiscrepancyNoteDAO) SubjectGroupMapBean(org.akaza.openclinica.bean.submit.SubjectGroupMapBean) FormDiscrepancyNotes(org.akaza.openclinica.control.form.FormDiscrepancyNotes) SubjectGroupMapDAO(org.akaza.openclinica.dao.submit.SubjectGroupMapDAO) HashMap(java.util.HashMap) StudySubjectDAO(org.akaza.openclinica.dao.managestudy.StudySubjectDAO) SubjectDAO(org.akaza.openclinica.dao.submit.SubjectDAO) FormProcessor(org.akaza.openclinica.control.form.FormProcessor) StudyGroupClassDAO(org.akaza.openclinica.dao.managestudy.StudyGroupClassDAO) StudyBean(org.akaza.openclinica.bean.managestudy.StudyBean) ArrayList(java.util.ArrayList) StudyGroupDAO(org.akaza.openclinica.dao.managestudy.StudyGroupDAO) StudySubjectDAO(org.akaza.openclinica.dao.managestudy.StudySubjectDAO) StudySubjectBean(org.akaza.openclinica.bean.managestudy.StudySubjectBean) StudyGroupClassBean(org.akaza.openclinica.bean.managestudy.StudyGroupClassBean) Iterator(java.util.Iterator) Collection(java.util.Collection) StudyDAO(org.akaza.openclinica.dao.managestudy.StudyDAO)

Aggregations

DiscrepancyNoteDAO (org.akaza.openclinica.dao.managestudy.DiscrepancyNoteDAO)44 DiscrepancyNoteBean (org.akaza.openclinica.bean.managestudy.DiscrepancyNoteBean)34 ArrayList (java.util.ArrayList)32 StudySubjectDAO (org.akaza.openclinica.dao.managestudy.StudySubjectDAO)22 StudySubjectBean (org.akaza.openclinica.bean.managestudy.StudySubjectBean)20 EventCRFDAO (org.akaza.openclinica.dao.submit.EventCRFDAO)19 StudyEventBean (org.akaza.openclinica.bean.managestudy.StudyEventBean)18 Date (java.util.Date)17 StudyBean (org.akaza.openclinica.bean.managestudy.StudyBean)17 EventCRFBean (org.akaza.openclinica.bean.submit.EventCRFBean)17 FormProcessor (org.akaza.openclinica.control.form.FormProcessor)17 StudyDAO (org.akaza.openclinica.dao.managestudy.StudyDAO)17 StudyEventDAO (org.akaza.openclinica.dao.managestudy.StudyEventDAO)16 HashMap (java.util.HashMap)14 FormDiscrepancyNotes (org.akaza.openclinica.control.form.FormDiscrepancyNotes)13 StudyEventDefinitionDAO (org.akaza.openclinica.dao.managestudy.StudyEventDefinitionDAO)13 StudyEventDefinitionBean (org.akaza.openclinica.bean.managestudy.StudyEventDefinitionBean)11 SubjectDAO (org.akaza.openclinica.dao.submit.SubjectDAO)11 EventDefinitionCRFDAO (org.akaza.openclinica.dao.managestudy.EventDefinitionCRFDAO)10 ItemDataDAO (org.akaza.openclinica.dao.submit.ItemDataDAO)10