Examples with EventCRFDAO org.akaza.openclinica.dao.submit.EventCRFDAO used on opensource projects

Example 16 with EventCRFDAO

use of org.akaza.openclinica.dao.submit.EventCRFDAO in project OpenClinica by OpenClinica.

the class ExportExcelStudySubjectAuditLogServlet method processRequest.

@Override
public void processRequest() throws Exception {
    StudySubjectDAO subdao = new StudySubjectDAO(sm.getDataSource());
    SubjectDAO sdao = new SubjectDAO(sm.getDataSource());
    AuditDAO adao = new AuditDAO(sm.getDataSource());
    StudyEventDAO sedao = new StudyEventDAO(sm.getDataSource());
    StudyEventDefinitionDAO seddao = new StudyEventDefinitionDAO(sm.getDataSource());
    EventDefinitionCRFDAO edcdao = new EventDefinitionCRFDAO(sm.getDataSource());
    EventCRFDAO ecdao = new EventCRFDAO(sm.getDataSource());
    StudyDAO studydao = new StudyDAO(sm.getDataSource());
    CRFDAO cdao = new CRFDAO(sm.getDataSource());
    CRFVersionDAO cvdao = new CRFVersionDAO(sm.getDataSource());
    StudySubjectBean studySubject = null;
    SubjectBean subject = null;
    ArrayList events = null;
    ArrayList studySubjectAudits = new ArrayList();
    ArrayList eventCRFAudits = new ArrayList();
    ArrayList studyEventAudits = new ArrayList();
    ArrayList allDeletedEventCRFs = new ArrayList();
    ArrayList allEventCRFs = new ArrayList();
    ArrayList allEventCRFItems = new ArrayList();
    String attachedFilePath = Utils.getAttachedFilePath(currentStudy);
    FormProcessor fp = new FormProcessor(request);
    int studySubId = fp.getInt("id", true);
    if (studySubId == 0) {
        addPageMessage(respage.getString("please_choose_a_subject_to_view"));
        forwardPage(Page.LIST_STUDY_SUBJECTS);
    } else {
        studySubject = (StudySubjectBean) subdao.findByPK(studySubId);
        StudyBean study = (StudyBean) studydao.findByPK(studySubject.getStudyId());
        // Check if this StudySubject would be accessed from the Current Study
        if (studySubject.getStudyId() != currentStudy.getId()) {
            if (currentStudy.getParentStudyId() > 0) {
                addPageMessage(respage.getString("no_have_correct_privilege_current_study") + " " + respage.getString("change_active_study_or_contact"));
                forwardPage(Page.MENU_SERVLET);
                return;
            } else {
                // The SubjectStudy is not belong to currentstudy and current study is not a site.
                Collection sites = studydao.findOlnySiteIdsByStudy(currentStudy);
                if (!sites.contains(study.getId())) {
                    addPageMessage(respage.getString("no_have_correct_privilege_current_study") + " " + respage.getString("change_active_study_or_contact"));
                    forwardPage(Page.MENU_SERVLET);
                    return;
                }
            }
        }
        subject = (SubjectBean) sdao.findByPK(studySubject.getSubjectId());
        /* Show both study subject and subject audit events together */
        // Study subject value changed
        Collection studySubjectAuditEvents = adao.findStudySubjectAuditEvents(studySubject.getId());
        // integer values.
        for (Iterator iterator = studySubjectAuditEvents.iterator(); iterator.hasNext(); ) {
            AuditBean auditBean = (AuditBean) iterator.next();
            if (auditBean.getAuditEventTypeId() == 3) {
                auditBean.setOldValue(Status.get(Integer.parseInt(auditBean.getOldValue())).getName());
                auditBean.setNewValue(Status.get(Integer.parseInt(auditBean.getNewValue())).getName());
            }
        }
        studySubjectAudits.addAll(studySubjectAuditEvents);
        // Global subject value changed
        studySubjectAudits.addAll(adao.findSubjectAuditEvents(subject.getId()));
        studySubjectAudits.addAll(adao.findStudySubjectGroupAssignmentAuditEvents(studySubject.getId()));
        // Get the list of events
        events = sedao.findAllByStudySubject(studySubject);
        for (int i = 0; i < events.size(); i++) {
            // Link study event definitions
            StudyEventBean studyEvent = (StudyEventBean) events.get(i);
            studyEvent.setStudyEventDefinition((StudyEventDefinitionBean) seddao.findByPK(studyEvent.getStudyEventDefinitionId()));
            // Link event CRFs
            studyEvent.setEventCRFs(ecdao.findAllByStudyEvent(studyEvent));
            // Find deleted Event CRFs
            List deletedEventCRFs = adao.findDeletedEventCRFsFromAuditEvent(studyEvent.getId());
            allDeletedEventCRFs.addAll(deletedEventCRFs);
            List eventCRFs = (List) adao.findAllEventCRFAuditEvents(studyEvent.getId());
            allEventCRFs.addAll(eventCRFs);
            List eventCRFItems = (List) adao.findAllEventCRFAuditEventsWithItemDataType(studyEvent.getId());
            allEventCRFItems.addAll(eventCRFItems);
            logger.info("deletedEventCRFs size[" + deletedEventCRFs.size() + "]");
            logger.info("allEventCRFItems size[" + allEventCRFItems.size() + "]");
        }
        for (int i = 0; i < events.size(); i++) {
            StudyEventBean studyEvent = (StudyEventBean) events.get(i);
            studyEventAudits.addAll(adao.findStudyEventAuditEvents(studyEvent.getId()));
            ArrayList eventCRFs = studyEvent.getEventCRFs();
            for (int j = 0; j < eventCRFs.size(); j++) {
                // Link CRF and CRF Versions
                EventCRFBean eventCRF = (EventCRFBean) eventCRFs.get(j);
                eventCRF.setCrfVersion((CRFVersionBean) cvdao.findByPK(eventCRF.getCRFVersionId()));
                eventCRF.setCrf(cdao.findByVersionId(eventCRF.getCRFVersionId()));
                // Get the event crf audits
                eventCRFAudits.addAll(adao.findEventCRFAuditEventsWithItemDataType(eventCRF.getId()));
                logger.info("eventCRFAudits size [" + eventCRFAudits.size() + "] eventCRF id [" + eventCRF.getId() + "]");
            }
        }
        ItemDataDAO itemDataDao = new ItemDataDAO(sm.getDataSource());
        for (Object o : eventCRFAudits) {
            AuditBean ab = (AuditBean) o;
            if (ab.getAuditTable().equalsIgnoreCase("item_data")) {
                ItemDataBean idBean = (ItemDataBean) itemDataDao.findByPK(ab.getEntityId());
                ab.setOrdinal(idBean.getOrdinal());
            }
        }
    }
    try {
        WritableFont headerFormat = new WritableFont(WritableFont.ARIAL, 8, WritableFont.BOLD, false, UnderlineStyle.NO_UNDERLINE, Colour.BLUE2);
        WritableCellFormat cellFormat = new WritableCellFormat();
        cellFormat.setFont(headerFormat);
        response.setContentType("application/vnd.ms-excel");
        response.setHeader("Content-Disposition", "attachment; filename=export.xls");
        WorkbookSettings wbSettings = new WorkbookSettings();
        wbSettings.setLocale(new Locale("en", "EN"));
        WritableWorkbook workbook = Workbook.createWorkbook(response.getOutputStream(), wbSettings);
        int row = 0;
        // Subject Information
        workbook.createSheet("Subject Information", 0);
        WritableSheet excelSheet = workbook.getSheet(0);
        // Subject Summary
        String[] excelRow = new String[] { "study_subject_ID", "secondary_subject_ID", "date_of_birth", "person_ID", "created_by", "status" };
        for (int i = 0; i < excelRow.length; i++) {
            Label label = new Label(i, row, ResourceBundleProvider.getResWord(excelRow[i]), cellFormat);
            excelSheet.addCell(label);
        }
        row++;
        excelRow = new String[] { studySubject.getLabel(), studySubject.getSecondaryLabel(), dateFormat(subject.getDateOfBirth()), subject.getUniqueIdentifier(), studySubject.getOwner().getName(), studySubject.getStatus().getName() };
        for (int i = 0; i < excelRow.length; i++) {
            Label label = new Label(i, row, ResourceBundleProvider.getResWord(excelRow[i]), cellFormat);
            excelSheet.addCell(label);
        }
        row++;
        row++;
        // Subject Audit Events
        excelRow = new String[] { "audit_event", "date_time_of_server", "user", "value_type", "old", "new" };
        for (int i = 0; i < excelRow.length; i++) {
            Label label = new Label(i, row, ResourceBundleProvider.getResWord(excelRow[i]), cellFormat);
            excelSheet.addCell(label);
        }
        row++;
        for (int j = 0; j < studySubjectAudits.size(); j++) {
            AuditBean audit = (AuditBean) studySubjectAudits.get(j);
            excelRow = new String[] { audit.getAuditEventTypeName(), dateTimeFormat(audit.getAuditDate()), audit.getUserName(), audit.getEntityName(), audit.getOldValue(), audit.getNewValue() };
            for (int i = 0; i < excelRow.length; i++) {
                Label label = new Label(i, row, ResourceBundleProvider.getResWord(excelRow[i]), cellFormat);
                excelSheet.addCell(label);
            }
            row++;
        }
        row++;
        // Study Events
        excelRow = new String[] { "study_events", "location", "date", "occurrence_number" };
        for (int i = 0; i < excelRow.length; i++) {
            Label label = new Label(i, row, ResourceBundleProvider.getResWord(excelRow[i]), cellFormat);
            excelSheet.addCell(label);
        }
        row++;
        for (int j = 0; j < events.size(); j++) {
            StudyEventBean event = (StudyEventBean) events.get(j);
            if (event.getStartTimeFlag()) {
                excelRow = new String[] { event.getStudyEventDefinition().getName(), event.getLocation(), dateTimeFormat(event.getDateStarted()), Integer.toString(event.getSampleOrdinal()) };
            } else {
                excelRow = new String[] { event.getStudyEventDefinition().getName(), event.getLocation(), dateFormat(event.getDateStarted()), Integer.toString(event.getSampleOrdinal()) };
            }
            for (int i = 0; i < excelRow.length; i++) {
                Label label = new Label(i, row, ResourceBundleProvider.getResWord(excelRow[i]), cellFormat);
                excelSheet.addCell(label);
            }
            row++;
        }
        autoSizeColumns(excelSheet);
        int sheet = 0;
        // Study Event Summary Looper
        for (int eventCount = 0; eventCount < events.size(); eventCount++) {
            row = 0;
            sheet++;
            StudyEventBean event = (StudyEventBean) events.get(eventCount);
            workbook.createSheet(event.getStudyEventDefinition().getName().replace("/", ".") + "_" + event.getSampleOrdinal(), sheet);
            excelSheet = workbook.getSheet(sheet);
            Label label = null;
            // Header
            label = new Label(0, row, ResourceBundleProvider.getResWord("name"), cellFormat);
            excelSheet.addCell(label);
            label = new Label(1, row, event.getStudyEventDefinition().getName(), cellFormat);
            excelSheet.addCell(label);
            row++;
            label = new Label(0, row, "Location");
            excelSheet.addCell(label);
            label = new Label(1, row, event.getLocation());
            excelSheet.addCell(label);
            row++;
            label = new Label(0, row, "Start Date");
            excelSheet.addCell(label);
            if (event.getStartTimeFlag()) {
                label = new Label(1, row, dateTimeFormat(event.getDateStarted()));
            } else {
                label = new Label(1, row, dateFormat(event.getDateStarted()));
            }
            excelSheet.addCell(label);
            row++;
            label = new Label(0, row, "Status");
            excelSheet.addCell(label);
            label = new Label(1, row, event.getSubjectEventStatus().getName());
            excelSheet.addCell(label);
            row++;
            label = new Label(0, row, ResourceBundleProvider.getResWord("occurrence_number"));
            excelSheet.addCell(label);
            label = new Label(1, row, Integer.toString(event.getSampleOrdinal()));
            excelSheet.addCell(label);
            row++;
            row++;
            // End Header
            // Audit for Deleted Event CRFs
            excelRow = new String[] { "name", "version", "deleted_by", "delete_date" };
            for (int i = 0; i < excelRow.length; i++) {
                label = new Label(i, row, ResourceBundleProvider.getResWord(excelRow[i]), cellFormat);
                excelSheet.addCell(label);
            }
            row++;
            for (int j = 0; j < allDeletedEventCRFs.size(); j++) {
                DeletedEventCRFBean deletedEventCRF = (DeletedEventCRFBean) allDeletedEventCRFs.get(j);
                if (deletedEventCRF.getStudyEventId() == event.getId()) {
                    excelRow = new String[] { deletedEventCRF.getCrfName(), deletedEventCRF.getFormLayout(), deletedEventCRF.getDeletedBy(), dateFormat(deletedEventCRF.getDeletedDate()) };
                    for (int i = 0; i < excelRow.length; i++) {
                        label = new Label(i, row, ResourceBundleProvider.getResWord(excelRow[i]), cellFormat);
                        excelSheet.addCell(label);
                    }
                    row++;
                }
            }
            row++;
            row++;
            // Audit Events for Study Event
            excelRow = new String[] { "audit_event", "date_time_of_server", "user", "value_type", "old", "new" };
            for (int i = 0; i < excelRow.length; i++) {
                label = new Label(i, row, ResourceBundleProvider.getResWord(excelRow[i]), cellFormat);
                excelSheet.addCell(label);
            }
            row++;
            for (int j = 0; j < studyEventAudits.size(); j++) {
                AuditBean studyEvent = (AuditBean) studyEventAudits.get(j);
                if (studyEvent.getEntityId() == event.getId()) {
                    String getOld = studyEvent.getOldValue();
                    String oldValue = "";
                    if (getOld.equals("0"))
                        oldValue = "invalid";
                    else if (getOld.equals("1"))
                        oldValue = "scheduled";
                    else if (getOld.equals("2"))
                        oldValue = "not_scheduled";
                    else if (getOld.equals("3"))
                        oldValue = "data_entry_started";
                    else if (getOld.equals("4"))
                        oldValue = "completed";
                    else if (getOld.equals("5"))
                        oldValue = "stopped";
                    else if (getOld.equals("6"))
                        oldValue = "skipped";
                    else if (getOld.equals("7"))
                        oldValue = "locked";
                    else if (getOld.equals("8"))
                        oldValue = "signed";
                    else
                        oldValue = studyEvent.getOldValue();
                    String getNew = studyEvent.getNewValue();
                    String newValue = "";
                    if (getNew.equals("0"))
                        newValue = "invalid";
                    else if (getNew.equals("1"))
                        newValue = "scheduled";
                    else if (getNew.equals("2"))
                        newValue = "not_scheduled";
                    else if (getNew.equals("3"))
                        newValue = "data_entry_started";
                    else if (getNew.equals("4"))
                        newValue = "completed";
                    else if (getNew.equals("5"))
                        newValue = "removed";
                    else if (getNew.equals("6"))
                        newValue = "skipped";
                    else if (getNew.equals("7"))
                        newValue = "locked";
                    else if (getNew.equals("8"))
                        newValue = "signed";
                    else if (getNew.equals("9"))
                        newValue = "forzen";
                    else
                        newValue = studyEvent.getNewValue();
                    excelRow = new String[] { studyEvent.getAuditEventTypeName(), dateTimeFormat(studyEvent.getAuditDate()), studyEvent.getUserName(), studyEvent.getEntityName() + "(" + studyEvent.getOrdinal() + ")", oldValue, newValue };
                    for (int i = 0; i < excelRow.length; i++) {
                        label = new Label(i, row, ResourceBundleProvider.getResWord(excelRow[i]), cellFormat);
                        excelSheet.addCell(label);
                    }
                    row++;
                }
            }
            row++;
            row++;
            // Event CRFs Audit Events
            for (int j = 0; j < allEventCRFs.size(); j++) {
                AuditBean auditBean = (AuditBean) allEventCRFs.get(j);
                if (auditBean.getStudyEventId() == event.getId()) {
                    // Audit Events for Study Event
                    excelRow = new String[] { "name", "version", "date_interviewed", "interviewer_name", "owner" };
                    for (int i = 0; i < excelRow.length; i++) {
                        label = new Label(i, row, ResourceBundleProvider.getResWord(excelRow[i]), cellFormat);
                        excelSheet.addCell(label);
                    }
                    row++;
                    excelRow = new String[] { auditBean.getCrfName(), auditBean.getCrfVersionName(), dateFormat(auditBean.getDateInterviewed()), auditBean.getInterviewerName(), auditBean.getUserName() };
                    for (int i = 0; i < excelRow.length; i++) {
                        label = new Label(i, row, ResourceBundleProvider.getResWord(excelRow[i]), cellFormat);
                        excelSheet.addCell(label);
                    }
                    row++;
                    row++;
                    excelRow = new String[] { "audit_event", "date_time_of_server", "user", "value_type", "old", "new" };
                    for (int i = 0; i < excelRow.length; i++) {
                        label = new Label(i, row, ResourceBundleProvider.getResWord(excelRow[i]), cellFormat);
                        excelSheet.addCell(label);
                    }
                    row++;
                    row++;
                    for (int k = 0; k < allEventCRFItems.size(); k++) {
                        row--;
                        AuditBean eventCrfAudit = (AuditBean) allEventCRFItems.get(k);
                        if (eventCrfAudit.getStudyEventId() == event.getId() && eventCrfAudit.getEventCrfVersionId() == auditBean.getEventCrfVersionId()) {
                            String oldValue = "";
                            String newValue = "";
                            if (eventCrfAudit.getAuditEventTypeId() == 12 || eventCrfAudit.getEntityName().equals("Status")) {
                                String getOld = eventCrfAudit.getOldValue();
                                if (getOld.equals("0"))
                                    oldValue = "invalid";
                                else if (getOld.equals("1"))
                                    oldValue = "available";
                                else if (getOld.equals("2"))
                                    oldValue = "unavailable";
                                else if (getOld.equals("3"))
                                    oldValue = "private";
                                else if (getOld.equals("4"))
                                    oldValue = "pending";
                                else if (getOld.equals("5"))
                                    oldValue = "removed";
                                else if (getOld.equals("6"))
                                    oldValue = "locked";
                                else if (getOld.equals("7"))
                                    oldValue = "auto-removed";
                                else {
                                    oldValue = getOld;
                                }
                            } else if (eventCrfAudit.getAuditEventTypeId() == 32) {
                                String getOld = eventCrfAudit.getOldValue();
                                if (getOld.equals("0"))
                                    oldValue = "FALSE";
                                else if (getOld.equals("1"))
                                    oldValue = "TRUE";
                                else {
                                    oldValue = getOld;
                                }
                            } else {
                                oldValue = eventCrfAudit.getOldValue();
                            }
                            if (eventCrfAudit.getAuditEventTypeId() == 12 || eventCrfAudit.getEntityName().equals("Status")) {
                                String getNew = eventCrfAudit.getNewValue();
                                if (getNew.equals("0"))
                                    newValue = "invalid";
                                else if (getNew.equals("1"))
                                    newValue = "available";
                                else if (getNew.equals("2"))
                                    newValue = "unavailable";
                                else if (getNew.equals("3"))
                                    newValue = "private";
                                else if (getNew.equals("4"))
                                    newValue = "pending";
                                else if (getNew.equals("5"))
                                    newValue = "removed";
                                else if (getNew.equals("6"))
                                    newValue = "locked";
                                else if (getNew.equals("7"))
                                    newValue = "auto-removed";
                                else {
                                    newValue = getNew;
                                }
                            } else if (eventCrfAudit.getAuditEventTypeId() == 32) {
                                String getNew = eventCrfAudit.getNewValue();
                                if (getNew.equals("0"))
                                    newValue = "FALSE";
                                else if (getNew.equals("1"))
                                    newValue = "TRUE";
                                else {
                                    newValue = getNew;
                                }
                            } else {
                                newValue = eventCrfAudit.getNewValue();
                            }
                            String ordinal = "";
                            if (eventCrfAudit.getOrdinal() != 0) {
                                ordinal = "(" + eventCrfAudit.getOrdinal() + ")";
                            } else if (eventCrfAudit.getOrdinal() == 0 && eventCrfAudit.getItemDataRepeatKey() != 0) {
                                ordinal = "(" + eventCrfAudit.getItemDataRepeatKey() + ")";
                            }
                            excelRow = new String[] { eventCrfAudit.getAuditEventTypeName(), dateTimeFormat(eventCrfAudit.getAuditDate()), eventCrfAudit.getUserName(), eventCrfAudit.getEntityName() + ordinal, oldValue, newValue };
                            for (int i = 0; i < excelRow.length; i++) {
                                label = new Label(i, row, ResourceBundleProvider.getResWord(excelRow[i]), cellFormat);
                                excelSheet.addCell(label);
                            }
                            row++;
                            row++;
                        }
                        row++;
                    }
                    row++;
                }
                autoSizeColumns(excelSheet);
            }
        }
        workbook.write();
        workbook.close();
        session.setAttribute("subject", null);
        session.setAttribute("study", null);
        session.setAttribute("studySub", null);
        session.setAttribute("studyEventAudits", null);
        session.setAttribute("studySubjectAudits", null);
        session.setAttribute("events", null);
        session.setAttribute("eventCRFAudits", null);
        session.setAttribute("allDeletedEventCRFs", null);
    } catch (Exception e) {
        throw e;
    } finally {
    // proposed move session attributes here
    }
}

Example 17 with EventCRFDAO

use of org.akaza.openclinica.dao.submit.EventCRFDAO in project OpenClinica by OpenClinica.

the class ListStudySubjectServlet method getDisplayStudyEventsForStudySubject.

public static DisplayStudyEventBean getDisplayStudyEventsForStudySubject(StudySubjectBean studySub, StudyEventBean event, DataSource ds, UserAccountBean ub, StudyUserRoleBean currentRole, StudyBean study) {
    StudyEventDefinitionDAO seddao = new StudyEventDefinitionDAO(ds);
    StudyEventDAO sedao = new StudyEventDAO(ds);
    EventCRFDAO ecdao = new EventCRFDAO(ds);
    EventDefinitionCRFDAO edcdao = new EventDefinitionCRFDAO(ds);
    StudyEventDefinitionBean sed = (StudyEventDefinitionBean) seddao.findByPK(event.getStudyEventDefinitionId());
    event.setStudyEventDefinition(sed);
    // find all active crfs in the definition
    ArrayList eventDefinitionCRFs = edcdao.findAllActiveByEventDefinitionId(sed.getId());
    ArrayList eventCRFs = ecdao.findAllByStudyEvent(event);
    // construct info needed on view study event page
    DisplayStudyEventBean de = new DisplayStudyEventBean();
    de.setStudyEvent(event);
    de.setDisplayEventCRFs(ViewStudySubjectServlet.getDisplayEventCRFs(ds, eventCRFs, eventDefinitionCRFs, ub, currentRole, event.getSubjectEventStatus(), study));
    ArrayList al = ViewStudySubjectServlet.getUncompletedCRFs(ds, eventDefinitionCRFs, eventCRFs, event.getSubjectEventStatus());
    // ViewStudySubjectServlet.populateUncompletedCRFsWithCRFAndVersions(ds,
    // al);
    de.setUncompletedCRFs(al);
    return de;
}

Example 18 with EventCRFDAO

use of org.akaza.openclinica.dao.submit.EventCRFDAO in project OpenClinica by OpenClinica.

the class ListEventDefinitionServlet method processRequest.

/**
     * Processes the request
     */
@Override
public void processRequest() throws Exception {
    StudyEventDefinitionDAO edao = new StudyEventDefinitionDAO(sm.getDataSource());
    UserAccountDAO sdao = new UserAccountDAO(sm.getDataSource());
    EventDefinitionCRFDAO edcdao = new EventDefinitionCRFDAO(sm.getDataSource());
    CRFDAO crfDao = new CRFDAO(sm.getDataSource());
    CRFVersionDAO crfVersionDao = new CRFVersionDAO(sm.getDataSource());
    ArrayList seds = edao.findAllByStudy(currentStudy);
    // request.setAttribute("seds", seds);
    StudyEventDAO sedao = new StudyEventDAO(sm.getDataSource());
    EventCRFDAO ecdao = new EventCRFDAO(sm.getDataSource());
    ItemDataDAO iddao = new ItemDataDAO(sm.getDataSource());
    for (int i = 0; i < seds.size(); i++) {
        StudyEventDefinitionBean sed = (StudyEventDefinitionBean) seds.get(i);
        Collection eventDefinitionCRFlist = edcdao.findAllParentsByDefinition(sed.getId());
        Map crfWithDefaultVersion = new LinkedHashMap();
        for (Iterator it = eventDefinitionCRFlist.iterator(); it.hasNext(); ) {
            EventDefinitionCRFBean edcBean = (EventDefinitionCRFBean) it.next();
            CRFBean crfBean = (CRFBean) crfDao.findByPK(edcBean.getCrfId());
            CRFVersionBean crfVersionBean = (CRFVersionBean) crfVersionDao.findByPK(edcBean.getDefaultVersionId());
            logger.info("ED[" + sed.getName() + "]crf[" + crfBean.getName() + "]dv[" + crfVersionBean.getName() + "]");
            crfWithDefaultVersion.put(crfBean.getName(), crfVersionBean.getName());
        }
        sed.setCrfsWithDefaultVersion(crfWithDefaultVersion);
        logger.info("CRF size [" + sed.getCrfs().size() + "]");
        if (sed.getUpdater().getId() == 0) {
            sed.setUpdater(sed.getOwner());
            sed.setUpdatedDate(sed.getCreatedDate());
        }
        if (isPopulated(sed, sedao)) {
            sed.setPopulated(true);
        }
    }
    FormProcessor fp = new FormProcessor(request);
    EntityBeanTable table = fp.getEntityBeanTable();
    ArrayList allStudyRows = StudyEventDefinitionRow.generateRowsFromBeans(seds);
    String[] columns = { resword.getString("order"), resword.getString("name"), resword.getString("OID"), resword.getString("repeating"), resword.getString("type"), resword.getString("category"), resword.getString("populated"), resword.getString("date_created"), resword.getString("date_updated"), resword.getString("CRFs"), resword.getString("default_version"), resword.getString("actions") };
    table.setColumns(new ArrayList(Arrays.asList(columns)));
    // >> tbh #4169 09/2009
    table.hideColumnLink(2);
    table.hideColumnLink(3);
    table.hideColumnLink(4);
    table.hideColumnLink(6);
    table.hideColumnLink(7);
    table.hideColumnLink(8);
    table.hideColumnLink(9);
    // crfs, tbh
    table.hideColumnLink(10);
    table.hideColumnLink(11);
    table.hideColumnLink(12);
    // << tbh 09/2009
    table.setQuery("ListEventDefinition", new HashMap());
    // if (!currentStudy.getStatus().isLocked()) {
    // table.addLink(resworkflow.getString(
    // "create_a_new_study_event_definition"), "DefineStudyEvent");
    // }
    table.setRows(allStudyRows);
    table.setPaginated(false);
    table.computeDisplay();
    request.setAttribute("table", table);
    request.setAttribute("defSize", new Integer(seds.size()));
    if (request.getParameter("read") != null && request.getParameter("read").equals("true")) {
        request.setAttribute("readOnly", true);
    }
    forwardPage(Page.STUDY_EVENT_DEFINITION_LIST);
}

Example 19 with EventCRFDAO

use of org.akaza.openclinica.dao.submit.EventCRFDAO in project OpenClinica by OpenClinica.

the class RemoveSiteServlet method processRequest.

@Override
public void processRequest() throws Exception {
    StudyDAO sdao = new StudyDAO(sm.getDataSource());
    String idString = request.getParameter("id");
    logger.info("site id:" + idString);
    int siteId = Integer.valueOf(idString.trim()).intValue();
    StudyBean study = (StudyBean) sdao.findByPK(siteId);
    if (currentStudy.getId() != study.getParentStudyId()) {
        addPageMessage(respage.getString("no_have_correct_privilege_current_study") + " " + respage.getString("change_active_study_or_contact"));
        forwardPage(Page.MENU_SERVLET);
        return;
    }
    // find all user and roles
    UserAccountDAO udao = new UserAccountDAO(sm.getDataSource());
    ArrayList userRoles = udao.findAllByStudyId(siteId);
    // find all subjects
    StudySubjectDAO ssdao = new StudySubjectDAO(sm.getDataSource());
    ArrayList subjects = ssdao.findAllByStudy(study);
    // find all events
    StudyEventDefinitionDAO sefdao = new StudyEventDefinitionDAO(sm.getDataSource());
    ArrayList definitions = sefdao.findAllByStudy(study);
    String action = request.getParameter("action");
    if (StringUtil.isBlank(idString)) {
        addPageMessage(respage.getString("please_choose_a_site_to_remove"));
        forwardPage(Page.SITE_LIST_SERVLET);
    } else {
        if ("confirm".equalsIgnoreCase(action)) {
            request.setAttribute("siteToRemove", study);
            request.setAttribute("userRolesToRemove", userRoles);
            request.setAttribute("subjectsToRemove", subjects);
            forwardPage(Page.REMOVE_SITE);
        } else {
            logger.info("submit to remove the site");
            // change all statuses to unavailable
            StudyDAO studao = new StudyDAO(sm.getDataSource());
            study.setOldStatus(study.getStatus());
            study.setStatus(Status.DELETED);
            study.setUpdater(ub);
            study.setUpdatedDate(new Date());
            studao.update(study);
            // remove all users and roles
            for (int i = 0; i < userRoles.size(); i++) {
                StudyUserRoleBean role = (StudyUserRoleBean) userRoles.get(i);
                if (!role.getStatus().equals(Status.DELETED)) {
                    role.setStatus(Status.AUTO_DELETED);
                    role.setUpdater(ub);
                    role.setUpdatedDate(new Date());
                    // YW << So study_user_role table status_id field can be
                    // updated
                    udao.updateStudyUserRole(role, role.getUserName());
                }
            // YW 06-18-2007 >>
            }
            // YW << bug fix that current active study has been deleted
            if (study.getId() == currentStudy.getId()) {
                currentStudy.setStatus(Status.DELETED);
                // currentRole.setRole(Role.INVALID);
                currentRole.setStatus(Status.DELETED);
            }
            // remove all subjects
            for (int i = 0; i < subjects.size(); i++) {
                StudySubjectBean subject = (StudySubjectBean) subjects.get(i);
            }
            // remove all study_group
            StudyGroupDAO sgdao = new StudyGroupDAO(sm.getDataSource());
            SubjectGroupMapDAO sgmdao = new SubjectGroupMapDAO(sm.getDataSource());
            ArrayList groups = sgdao.findAllByStudy(study);
            for (int i = 0; i < groups.size(); i++) {
                StudyGroupBean group = (StudyGroupBean) groups.get(i);
                if (!group.getStatus().equals(Status.DELETED)) {
                    group.setStatus(Status.AUTO_DELETED);
                    group.setUpdater(ub);
                    group.setUpdatedDate(new Date());
                    sgdao.update(group);
                    // all subject_group_map
                    ArrayList subjectGroupMaps = sgmdao.findAllByStudyGroupId(group.getId());
                    for (int j = 0; j < subjectGroupMaps.size(); j++) {
                        SubjectGroupMapBean sgMap = (SubjectGroupMapBean) subjectGroupMaps.get(j);
                        if (!sgMap.getStatus().equals(Status.DELETED)) {
                            sgMap.setStatus(Status.AUTO_DELETED);
                            sgMap.setUpdater(ub);
                            sgMap.setUpdatedDate(new Date());
                            sgmdao.update(sgMap);
                        }
                    }
                }
            }
            // remove all events
            EventDefinitionCRFDAO edcdao = new EventDefinitionCRFDAO(sm.getDataSource());
            StudyEventDAO sedao = new StudyEventDAO(sm.getDataSource());
            for (int i = 0; i < subjects.size(); i++) {
                StudySubjectBean subject = (StudySubjectBean) subjects.get(i);
                if (!subject.getStatus().equals(Status.DELETED)) {
                    subject.setStatus(Status.AUTO_DELETED);
                    subject.setUpdater(ub);
                    subject.setUpdatedDate(new Date());
                    ssdao.update(subject);
                    ArrayList events = sedao.findAllByStudySubject(subject);
                    EventCRFDAO ecdao = new EventCRFDAO(sm.getDataSource());
                    for (int j = 0; j < events.size(); j++) {
                        StudyEventBean event = (StudyEventBean) events.get(j);
                        if (!event.getStatus().equals(Status.DELETED)) {
                            event.setStatus(Status.AUTO_DELETED);
                            event.setUpdater(ub);
                            event.setUpdatedDate(new Date());
                            sedao.update(event);
                            ArrayList eventCRFs = ecdao.findAllByStudyEvent(event);
                            ItemDataDAO iddao = new ItemDataDAO(sm.getDataSource());
                            for (int k = 0; k < eventCRFs.size(); k++) {
                                EventCRFBean eventCRF = (EventCRFBean) eventCRFs.get(k);
                                if (!eventCRF.getStatus().equals(Status.DELETED)) {
                                    eventCRF.setOldStatus(eventCRF.getStatus());
                                    eventCRF.setStatus(Status.AUTO_DELETED);
                                    eventCRF.setUpdater(ub);
                                    eventCRF.setUpdatedDate(new Date());
                                    ecdao.update(eventCRF);
                                    ArrayList itemDatas = iddao.findAllByEventCRFId(eventCRF.getId());
                                    for (int a = 0; a < itemDatas.size(); a++) {
                                        ItemDataBean item = (ItemDataBean) itemDatas.get(a);
                                        if (!item.getStatus().equals(Status.DELETED)) {
                                            item.setOldStatus(item.getStatus());
                                            item.setStatus(Status.AUTO_DELETED);
                                            item.setUpdater(ub);
                                            item.setUpdatedDate(new Date());
                                            iddao.update(item);
                                        }
                                    }
                                }
                            }
                        }
                    }
                }
            }
            // for subjects
            DatasetDAO datadao = new DatasetDAO(sm.getDataSource());
            ArrayList dataset = datadao.findAllByStudyId(study.getId());
            for (int i = 0; i < dataset.size(); i++) {
                DatasetBean data = (DatasetBean) dataset.get(i);
                if (!data.getStatus().equals(Status.DELETED)) {
                    data.setStatus(Status.AUTO_DELETED);
                    data.setUpdater(ub);
                    data.setUpdatedDate(new Date());
                    datadao.update(data);
                }
            }
            addPageMessage(respage.getString("this_site_has_been_removed_succesfully"));
            String fromListSite = (String) session.getAttribute("fromListSite");
            if (fromListSite != null && fromListSite.equals("yes") && currentRole.getRole().equals(Role.STUDYDIRECTOR)) {
                session.removeAttribute("fromListSite");
                forwardPage(Page.SITE_LIST_SERVLET);
            } else {
                session.removeAttribute("fromListSite");
                if (currentRole.getRole().equals(Role.ADMIN)) {
                    forwardPage(Page.STUDY_LIST_SERVLET);
                } else {
                    forwardPage(Page.SITE_LIST_SERVLET);
                }
            }
        }
    }
}

Example 20 with EventCRFDAO

use of org.akaza.openclinica.dao.submit.EventCRFDAO in project OpenClinica by OpenClinica.

the class RemoveEventCRFServlet method processRequest.

@Override
public void processRequest() throws Exception {
    FormProcessor fp = new FormProcessor(request);
    // eventCRFId
    int eventCRFId = fp.getInt("id");
    // studySubjectId
    int studySubId = fp.getInt("studySubId");
    checkStudyLocked("ViewStudySubject?id" + studySubId, respage.getString("current_study_locked"));
    StudyEventDAO sedao = new StudyEventDAO(sm.getDataSource());
    StudySubjectDAO subdao = new StudySubjectDAO(sm.getDataSource());
    EventCRFDAO ecdao = new EventCRFDAO(sm.getDataSource());
    StudyDAO sdao = new StudyDAO(sm.getDataSource());
    if (eventCRFId == 0) {
        addPageMessage(respage.getString("please_choose_an_event_CRF_to_remove"));
        request.setAttribute("id", new Integer(studySubId).toString());
        forwardPage(Page.VIEW_STUDY_SUBJECT_SERVLET);
    } else {
        EventCRFBean eventCRF = (EventCRFBean) ecdao.findByPK(eventCRFId);
        StudySubjectBean studySub = (StudySubjectBean) subdao.findByPK(studySubId);
        request.setAttribute("studySub", studySub);
        // construct info needed on view event crf page
        CRFDAO cdao = new CRFDAO(sm.getDataSource());
        CRFVersionDAO cvdao = new CRFVersionDAO(sm.getDataSource());
        int crfVersionId = eventCRF.getCRFVersionId();
        CRFBean cb = cdao.findByVersionId(crfVersionId);
        eventCRF.setCrf(cb);
        CRFVersionBean cvb = (CRFVersionBean) cvdao.findByPK(crfVersionId);
        eventCRF.setCrfVersion(cvb);
        // then get the definition so we can call
        // DisplayEventCRFBean.setFlags
        int studyEventId = eventCRF.getStudyEventId();
        StudyEventBean event = (StudyEventBean) sedao.findByPK(studyEventId);
        int studyEventDefinitionId = sedao.getDefinitionIdFromStudyEventId(studyEventId);
        StudyEventDefinitionDAO seddao = new StudyEventDefinitionDAO(sm.getDataSource());
        StudyEventDefinitionBean sed = (StudyEventDefinitionBean) seddao.findByPK(studyEventDefinitionId);
        event.setStudyEventDefinition(sed);
        request.setAttribute("event", event);
        EventDefinitionCRFDAO edcdao = new EventDefinitionCRFDAO(sm.getDataSource());
        StudyBean study = (StudyBean) sdao.findByPK(studySub.getStudyId());
        EventDefinitionCRFBean edc = edcdao.findByStudyEventDefinitionIdAndCRFId(study, studyEventDefinitionId, cb.getId());
        DisplayEventCRFBean dec = new DisplayEventCRFBean();
        dec.setEventCRF(eventCRF);
        dec.setFlags(eventCRF, ub, currentRole, edc.isDoubleEntry());
        // find all item data
        ItemDataDAO iddao = new ItemDataDAO(sm.getDataSource());
        ArrayList itemData = iddao.findAllByEventCRFId(eventCRF.getId());
        request.setAttribute("items", itemData);
        String action = request.getParameter("action");
        if ("confirm".equalsIgnoreCase(action)) {
            if (eventCRF.getStatus().equals(Status.DELETED) || eventCRF.getStatus().equals(Status.AUTO_DELETED)) {
                addPageMessage(respage.getString("this_event_CRF_is_removed_for_this_study") + " " + respage.getString("please_contact_sysadmin_for_more_information"));
                request.setAttribute("id", new Integer(studySubId).toString());
                forwardPage(Page.VIEW_STUDY_SUBJECT_SERVLET);
                return;
            }
            request.setAttribute("displayEventCRF", dec);
            forwardPage(Page.REMOVE_EVENT_CRF);
        } else {
            logger.info("submit to remove the event CRF from study");
            eventCRF.setStatus(Status.DELETED);
            eventCRF.setUpdater(ub);
            eventCRF.setUpdatedDate(new Date());
            ecdao.update(eventCRF);
            // remove all the item data
            for (int a = 0; a < itemData.size(); a++) {
                ItemDataBean item = (ItemDataBean) itemData.get(a);
                if (!item.getStatus().equals(Status.DELETED)) {
                    item.setStatus(Status.AUTO_DELETED);
                    item.setUpdater(ub);
                    item.setUpdatedDate(new Date());
                    iddao.update(item);
                    DiscrepancyNoteDAO dnDao = new DiscrepancyNoteDAO(sm.getDataSource());
                    List dnNotesOfRemovedItem = dnDao.findExistingNotesForItemData(item.getId());
                    if (!dnNotesOfRemovedItem.isEmpty()) {
                        DiscrepancyNoteBean itemParentNote = null;
                        for (Object obj : dnNotesOfRemovedItem) {
                            if (((DiscrepancyNoteBean) obj).getParentDnId() == 0) {
                                itemParentNote = (DiscrepancyNoteBean) obj;
                            }
                        }
                        DiscrepancyNoteBean dnb = new DiscrepancyNoteBean();
                        if (itemParentNote != null) {
                            dnb.setParentDnId(itemParentNote.getId());
                            dnb.setDiscrepancyNoteTypeId(itemParentNote.getDiscrepancyNoteTypeId());
                        }
                        dnb.setResolutionStatusId(ResolutionStatus.CLOSED.getId());
                        dnb.setStudyId(currentStudy.getId());
                        dnb.setAssignedUserId(ub.getId());
                        dnb.setOwner(ub);
                        dnb.setEntityType(DiscrepancyNoteBean.ITEM_DATA);
                        dnb.setEntityId(item.getId());
                        dnb.setColumn("value");
                        dnb.setCreatedDate(new Date());
                        dnb.setDescription("The item has been removed, this Discrepancy Note has been Closed.");
                        dnDao.create(dnb);
                        dnDao.createMapping(dnb);
                        itemParentNote.setResolutionStatusId(ResolutionStatus.CLOSED.getId());
                        dnDao.update(itemParentNote);
                    }
                }
            }
            String emailBody = respage.getString("the_event_CRF") + " " + cb.getName() + " " + respage.getString("has_been_removed_from_the_event") + event.getStudyEventDefinition().getName() + ". " + respage.getString("has_been_removed_from_the_event_cont");
            addPageMessage(emailBody);
            sendEmail(emailBody);
            request.setAttribute("id", new Integer(studySubId).toString());
            forwardPage(Page.VIEW_STUDY_SUBJECT_SERVLET);
        }
    }
}