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

Example 1 with ItemGroupDAO

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

the class PrintAllEventCRFServlet method processRequest.

@Override
public void processRequest(HttpServletRequest request, HttpServletResponse response) throws Exception {
    FormProcessor fp = new FormProcessor(request);
    SessionManager sm = (SessionManager) request.getSession().getAttribute("sm");
    EventCRFBean ecb = (EventCRFBean) request.getAttribute(INPUT_EVENT_CRF);
    SectionBean sb = (SectionBean) request.getAttribute(SECTION_BEAN);
    ArrayList<SectionBean> allSectionBeans;
    // The PrintDataEntry servlet handles this parameter
    boolean isSubmitted = false;
    StudyEventDefinitionDAO sedao = new StudyEventDefinitionDAO(sm.getDataSource());
    EventDefinitionCRFDAO edao = new EventDefinitionCRFDAO(sm.getDataSource());
    EventDefinitionCRFDAO edcdao = new EventDefinitionCRFDAO(sm.getDataSource());
    StudyDAO studyDao = new StudyDAO(sm.getDataSource());
    StudyBean currentStudy = (StudyBean) request.getSession().getAttribute("study");
    ArrayList<StudyEventDefinitionBean> seds = new ArrayList<StudyEventDefinitionBean>();
    seds = sedao.findAllByStudy(currentStudy);
    // ArrayList eventDefinitionCRFs = (ArrayList) edao.findAllByStudy(site);
    CRFVersionDAO cvdao = new CRFVersionDAO(sm.getDataSource());
    CRFDAO cdao = new CRFDAO(sm.getDataSource());
    ArrayList<EventDefinitionCRFBean> edcs = new ArrayList();
    for (StudyEventDefinitionBean sed : seds) {
        int defId = sed.getId();
        edcs.addAll(edcdao.findAllByDefinition(currentStudy, defId));
    }
    Map eventDefinitionDefaultVersions = new LinkedHashMap();
    for (int i = 0; i < edcs.size(); i++) {
        EventDefinitionCRFBean edc = edcs.get(i);
        ArrayList versions = (ArrayList) cvdao.findAllByCRF(edc.getCrfId());
        edc.setVersions(versions);
        CRFBean crf = (CRFBean) cdao.findByPK(edc.getCrfId());
        // edc.setCrfLabel(crf.getLabel());
        edc.setCrfName(crf.getName());
        // to show/hide edit action on jsp page
        if (crf.getStatus().equals(Status.AVAILABLE)) {
            edc.setOwner(crf.getOwner());
        }
        CRFVersionBean defaultVersion = (CRFVersionBean) cvdao.findByPK(edc.getDefaultVersionId());
        StudyEventDefinitionBean studyEventDefinitionBean = (StudyEventDefinitionBean) sedao.findByPK(edc.getStudyEventDefinitionId());
        edc.setDefaultVersionName(defaultVersion.getName());
        if (defaultVersion.getStatus().isAvailable()) {
            List list = (ArrayList) eventDefinitionDefaultVersions.get(studyEventDefinitionBean);
            if (list == null)
                list = new ArrayList();
            list.add(defaultVersion);
            eventDefinitionDefaultVersions.put(studyEventDefinitionBean, list);
        }
    }
    // Whether IE6 or IE7 is involved
    String isIE = fp.getString("ie");
    if ("y".equalsIgnoreCase(isIE)) {
        request.setAttribute("isInternetExplorer", "true");
    }
    SectionDAO sdao = new SectionDAO(sm.getDataSource());
    CRFVersionDAO crfVersionDAO = new CRFVersionDAO(sm.getDataSource());
    CRFDAO crfDao = new CRFDAO(sm.getDataSource());
    Map sedCrfBeans = null;
    for (Iterator it = eventDefinitionDefaultVersions.keySet().iterator(); it.hasNext(); ) {
        if (sedCrfBeans == null)
            sedCrfBeans = new LinkedHashMap();
        StudyEventDefinitionBean sedBean = (StudyEventDefinitionBean) it.next();
        List crfVersions = (ArrayList) eventDefinitionDefaultVersions.get(sedBean);
        for (Iterator crfIt = crfVersions.iterator(); crfIt.hasNext(); ) {
            CRFVersionBean crfVersionBean = (CRFVersionBean) crfIt.next();
            allSectionBeans = new ArrayList<SectionBean>();
            ArrayList sectionBeans = new ArrayList();
            ItemGroupDAO itemGroupDao = new ItemGroupDAO(sm.getDataSource());
            // Find truely grouped tables, not groups with a name of 'Ungrouped'
            List<ItemGroupBean> itemGroupBeans = itemGroupDao.findOnlyGroupsByCRFVersionID(crfVersionBean.getId());
            CRFBean crfBean = crfDao.findByVersionId(crfVersionBean.getId());
            if (itemGroupBeans.size() > 0) {
                // get a DisplaySectionBean for each section of the CRF, sort
                // them, then
                // dispatch the request to a print JSP. The constructor for this
                // handler takes
                // a boolean value depending on whether data is involved or not
                // ('false' in terms of this
                // servlet; see PrintDataEntryServlet).
                DisplaySectionBeanHandler handler = new DisplaySectionBeanHandler(false, getDataSource(), getServletContext());
                handler.setCrfVersionId(crfVersionBean.getId());
                // handler.setEventCRFId(eventCRFId);
                List<DisplaySectionBean> displaySectionBeans = handler.getDisplaySectionBeans();
                request.setAttribute("listOfDisplaySectionBeans", displaySectionBeans);
                // Make available the CRF names and versions for
                // the web page's header
                CRFVersionBean crfverBean = (CRFVersionBean) crfVersionDAO.findByPK(crfVersionBean.getId());
                request.setAttribute("crfVersionBean", crfverBean);
                request.setAttribute("crfBean", crfBean);
                // Set an attribute signaling that data is not involved
                request.setAttribute("dataInvolved", "false");
                PrintCRFBean printCrfBean = new PrintCRFBean();
                printCrfBean.setDisplaySectionBeans(displaySectionBeans);
                printCrfBean.setCrfVersionBean(crfVersionBean);
                printCrfBean.setCrfBean(crfBean);
                printCrfBean.setEventCrfBean(ecb);
                printCrfBean.setGrouped(true);
                List list = (ArrayList) sedCrfBeans.get(sedBean);
                if (list == null)
                    list = new ArrayList();
                list.add(printCrfBean);
                sedCrfBeans.put(sedBean, list);
                continue;
            }
            ecb = new EventCRFBean();
            ecb.setCRFVersionId(crfVersionBean.getId());
            CRFVersionBean version = (CRFVersionBean) crfVersionDAO.findByPK(crfVersionBean.getId());
            ArrayList sects = (ArrayList) sdao.findByVersionId(version.getId());
            for (int i = 0; i < sects.size(); i++) {
                sb = (SectionBean) sects.get(i);
                // super.sb = sb;
                int sectId = sb.getId();
                if (sectId > 0) {
                    allSectionBeans.add((SectionBean) sdao.findByPK(sectId));
                }
            }
            request.setAttribute(INPUT_EVENT_CRF, ecb);
            request.setAttribute(SECTION_BEAN, sb);
            request.setAttribute(ALL_SECTION_BEANS, allSectionBeans);
            sectionBeans = super.getAllDisplayBeans(request);
            DisplaySectionBean dsb = super.getDisplayBean(false, false, request, isSubmitted);
            PrintCRFBean printCrfBean = new PrintCRFBean();
            printCrfBean.setAllSections(sectionBeans);
            printCrfBean.setDisplaySectionBean(dsb);
            printCrfBean.setEventCrfBean(ecb);
            printCrfBean.setCrfVersionBean(crfVersionBean);
            printCrfBean.setCrfBean(crfBean);
            printCrfBean.setGrouped(false);
            List list = (ArrayList) sedCrfBeans.get(sedBean);
            if (list == null)
                list = new ArrayList();
            list.add(printCrfBean);
            sedCrfBeans.put(sedBean, list);
        }
    }
    request.setAttribute("sedCrfBeans", sedCrfBeans);
    request.setAttribute("studyName", currentStudy.getName());
    forwardPage(Page.VIEW_ALL_DEFAULT_CRF_VERSIONS_PRINT, request, response);
}

Example 2 with ItemGroupDAO

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

the class DataEntryServlet method checkGroups.

/**
 * Tries to check if a seciton has item groups
 * @param fp TODO
 * @param ecb TODO
 *
 * @return
 */
protected boolean checkGroups(FormProcessor fp, EventCRFBean ecb) {
    int sectionId = fp.getInt(INPUT_SECTION_ID, true);
    SectionDAO sdao = new SectionDAO(getDataSource());
    if (sectionId <= 0) {
        ArrayList sections = sdao.findAllByCRFVersionId(ecb.getCRFVersionId());
        for (int i = 0; i < sections.size(); i++) {
            SectionBean sb = (SectionBean) sections.get(i);
            // find the first section of this CRF
            sectionId = sb.getId();
            break;
        }
    }
    // we will look into db to see if any repeating items for this CRF
    // section
    ItemGroupDAO igdao = new ItemGroupDAO(getDataSource());
    // find any item group which doesn't equal to 'Ungrouped'
    ItemGroupBean itemGroup = igdao.findTopOneGroupBySectionId(sectionId);
    if (itemGroup != null && itemGroup.getId() > 0) {
        LOGGER.trace("This section has group");
        return true;
    }
    return false;
}

Example 3 with ItemGroupDAO

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

the class ViewSectionDataEntryRESTUrlServlet method processRequest.

@Override
public void processRequest(HttpServletRequest request, HttpServletResponse response) throws Exception {
    FormProcessor fp = new FormProcessor(request);
    StudyBean currentStudy = (StudyBean) request.getSession().getAttribute("study");
    EventCRFBean ecb = (EventCRFBean) request.getAttribute(INPUT_EVENT_CRF);
    SectionBean sb = (SectionBean) request.getAttribute(SECTION_BEAN);
    boolean isSubmitted = false;
    EventDefinitionCRFBean edcb = (EventDefinitionCRFBean) request.getAttribute(EVENT_DEF_CRF_BEAN);
    if (!fp.getString("exitTo").equals("")) {
        request.setAttribute("exitTo", request.getContextPath() + "/" + fp.getString("exitTo"));
    }
    int crfVersionId = fp.getInt("crfVersionId", true);
    Integer sectionId = (Integer) request.getAttribute("sectionId");
    if (sectionId == null || sectionId == 0) {
        sectionId = new Integer(1);
    }
    int eventCRFId = fp.getInt(EVENT_CRF_ID, true);
    int studySubjectId = fp.getInt("studySubjectId", true);
    String action = fp.getString("action");
    HttpSession session = request.getSession();
    String fromResolvingNotes = fp.getString("fromResolvingNotes", true);
    if (StringUtil.isBlank(fromResolvingNotes)) {
        session.removeAttribute(ViewNotesServlet.WIN_LOCATION);
        session.removeAttribute(ViewNotesServlet.NOTES_TABLE);
    }
    // Added for
    request.setAttribute("studySubjectId", studySubjectId + "");
    // Mantis
    // Issue
    // 2268
    // Added
    request.setAttribute("crfListPage", fp.getString("crfListPage"));
    // for
    // Mantis
    // Issue
    // 2268
    // Added for
    request.setAttribute("eventId", fp.getString("eventId"));
    // Mantis
    // Issue
    // 2268
    // YW <<
    int sedId = fp.getInt("sedId");
    request.setAttribute("sedId", sedId + "");
    int crfId = fp.getInt("crfId");
    // BWP>> ... try to get crfId from crfVersionId
    if (crfId == 0 && crfVersionId > 0) {
        CRFVersionDAO crfVDao = new CRFVersionDAO(getDataSource());
        CRFVersionBean crvVBean = (CRFVersionBean) crfVDao.findByPK(crfVersionId);
        if (crvVBean != null) {
            crfId = crvVBean.getCrfId();
        }
    }
    // YW >>
    // int eventDefinitionCRFId = fp.getInt("eventDefinitionCRFId");
    Integer eventDefinitionCRFId = (Integer) (request.getAttribute("eventDefinitionCRFId"));
    EventDefinitionCRFDAO eventCrfDao = new EventDefinitionCRFDAO(getDataSource());
    edcb = (EventDefinitionCRFBean) eventCrfDao.findByPK(eventDefinitionCRFId);
    if (eventCRFId == 0 && edcb.getStudyId() != currentStudy.getParentStudyId() && edcb.getStudyId() != currentStudy.getId()) {
        addPageMessage(respage.getString("no_have_correct_privilege_current_study") + " " + respage.getString("change_study_contact_sysadmin"), request);
        throw new InsufficientPermissionException(Page.MENU_SERVLET, resexception.getString("not_director"), "1");
    }
    if (crfId == 0 && eventDefinitionCRFId > 0) {
        // eventCrfDao.findByPK(eventDefinitionCRFId);
        if (edcb != null) {
            crfId = edcb.getCrfId();
        }
    }
    request.setAttribute("crfId", crfId + "");
    request.setAttribute("eventDefinitionCRFId", eventDefinitionCRFId + "");
    String printVersion = fp.getString("print");
    // BWP>> this has to be removed for CRFs that do not display an
    // interviewdate
    // for a particular event
    session.removeAttribute("presetValues");
    EventCRFDAO ecdao = new EventCRFDAO(getDataSource());
    SectionDAO sdao = new SectionDAO(getDataSource());
    String age = "";
    if (sectionId == 0 && crfVersionId == 0 && eventCRFId == 0) {
        addPageMessage(respage.getString("please_choose_a_CRF_to_view"), request);
        // forwardPage(Page.SUBMIT_DATA_SERVLET);
        forwardPage(Page.LIST_STUDY_SUBJECTS_SERVLET, request, response);
        // >> changed tbh, 06/2009
        return;
    }
    if (studySubjectId > 0) {
        StudySubjectDAO ssdao = new StudySubjectDAO(getDataSource());
        StudySubjectBean sub = (StudySubjectBean) ssdao.findByPK(studySubjectId);
        request.setAttribute("studySubject", sub);
    }
    if (eventCRFId > 0) {
        // for event crf, the input crfVersionId from url =0
        ecb = (EventCRFBean) ecdao.findByPK(eventCRFId);
        StudyEventDAO sedao = new StudyEventDAO(getDataSource());
        StudyEventBean event = (StudyEventBean) sedao.findByPK(ecb.getStudyEventId());
        // event.getSubjectEventStatus().getName());
        if (event.getSubjectEventStatus().equals(SubjectEventStatus.LOCKED)) {
            request.setAttribute("isLocked", "yes");
        // System.out.println("this event crf is locked");
        } else // @pgawade 28-Aug-2012 Reverted the change no. 2 in
        // https://issuetracker.openclinica.com/view.php?id=12343#c56722
        {
            request.setAttribute("isLocked", "no");
        }
        if (studySubjectId <= 0) {
            studySubjectId = event.getStudySubjectId();
            request.setAttribute("studySubjectId", studySubjectId + "");
        }
        // Get the status/number of item discrepancy notes
        DiscrepancyNoteDAO dndao = new DiscrepancyNoteDAO(getDataSource());
        ArrayList<DiscrepancyNoteBean> allNotes = new ArrayList<DiscrepancyNoteBean>();
        List<DiscrepancyNoteBean> eventCrfNotes = new ArrayList<DiscrepancyNoteBean>();
        List<DiscrepancyNoteThread> noteThreads = new ArrayList<DiscrepancyNoteThread>();
        // if (eventCRFId > 0) {
        // this method finds only parent notes
        allNotes = dndao.findAllTopNotesByEventCRF(eventCRFId);
        // add interviewer.jsp related notes to this Collection
        eventCrfNotes = dndao.findOnlyParentEventCRFDNotesFromEventCRF(ecb);
        if (!eventCrfNotes.isEmpty()) {
            allNotes.addAll(eventCrfNotes);
            // make sure a necessary request attribute "hasNameNote" is set
            // properly
            this.setAttributeForInterviewerDNotes(eventCrfNotes, request);
        }
        // }
        // Create disc note threads out of the various notes
        DiscrepancyNoteUtil dNoteUtil = new DiscrepancyNoteUtil();
        noteThreads = dNoteUtil.createThreadsOfParents(allNotes, getDataSource(), currentStudy, null, -1, true);
        // variables that provide values for the CRF discrepancy note header
        int updatedNum = 0;
        int openNum = 0;
        int closedNum = 0;
        int resolvedNum = 0;
        int notAppNum = 0;
        DiscrepancyNoteBean tempBean;
        for (DiscrepancyNoteThread dnThread : noteThreads) {
            /*
                 * 3014: do not count parent beans, only the last child disc
                 * note of the thread.
                 */
            tempBean = dnThread.getLinkedNoteList().getLast();
            if (tempBean != null) {
                if (ResolutionStatus.UPDATED.equals(tempBean.getResStatus())) {
                    updatedNum++;
                } else if (ResolutionStatus.OPEN.equals(tempBean.getResStatus())) {
                    openNum++;
                } else if (ResolutionStatus.CLOSED.equals(tempBean.getResStatus())) {
                    // if (dn.getParentDnId() > 0){
                    closedNum++;
                // }
                } else if (ResolutionStatus.RESOLVED.equals(tempBean.getResStatus())) {
                    // if (dn.getParentDnId() > 0){
                    resolvedNum++;
                // }
                } else if (ResolutionStatus.NOT_APPLICABLE.equals(tempBean.getResStatus())) {
                    notAppNum++;
                }
            }
        }
        request.setAttribute("updatedNum", updatedNum + "");
        request.setAttribute("openNum", openNum + "");
        request.setAttribute("closedNum", closedNum + "");
        request.setAttribute("resolvedNum", resolvedNum + "");
        request.setAttribute("notAppNum", notAppNum + "");
        DisplayTableOfContentsBean displayBean = TableOfContentsServlet.getDisplayBean(ecb, getDataSource(), currentStudy);
        // Make sure that the interviewDate in the eventCRF is properly
        // formatted
        // for viewSectionDataEntry.jsp --> interviewer.jsp
        // int studyEventId = (Integer)request.getAttribute("studyEvent");
        // SimpleDateFormat formatter = new SimpleDateFormat("MM/dd/yyyy");
        // 
        Date tmpDate = displayBean.getEventCRF().getDateInterviewed();
        String formattedInterviewerDate;
        try {
            DateFormat local_df = new SimpleDateFormat(resformat.getString("date_format_string"), ResourceBundleProvider.getLocale());
            formattedInterviewerDate = local_df.format(tmpDate);
        } catch (Exception e) {
            formattedInterviewerDate = "";
        }
        HashMap presetVals = (HashMap) session.getAttribute("presetValues");
        if (presetVals == null) {
            presetVals = new HashMap();
            session.setAttribute("presetValues", presetVals);
        }
        presetVals.put("interviewDate", formattedInterviewerDate);
        request.setAttribute("toc", displayBean);
        ArrayList sections = displayBean.getSections();
        request.setAttribute("sectionNum", sections.size() + "");
        if (!sections.isEmpty()) {
            if (sectionId == 0) {
                SectionBean firstSec = (SectionBean) sections.get(0);
                sectionId = firstSec.getId();
            }
        } else {
            addPageMessage(respage.getString("there_are_no_sections_ins_this_CRF"), request);
            // forwardPage(Page.SUBMIT_DATA_SERVLET);
            forwardPage(Page.LIST_STUDY_SUBJECTS_SERVLET, request, response);
            // >> changed tbh, 06/2009
            return;
        }
    } else if (crfVersionId > 0) {
        // for viewing blank CRF
        DisplayTableOfContentsBean displayBean = ViewTableOfContentServlet.getDisplayBean(getDataSource(), crfVersionId);
        request.setAttribute("toc", displayBean);
        ArrayList sections = displayBean.getSections();
        request.setAttribute("sectionNum", sections.size() + "");
        if (!sections.isEmpty()) {
            if (sectionId == 0) {
                SectionBean firstSec = (SectionBean) sections.get(0);
                sectionId = firstSec.getId();
            }
        } else {
            addPageMessage(respage.getString("there_are_no_sections_ins_this_CRF_version"), request);
            if (eventCRFId == 0) {
                forwardPage(Page.CRF_LIST_SERVLET, request, response);
            } else {
                // forwardPage(Page.SUBMIT_DATA_SERVLET);
                forwardPage(Page.LIST_STUDY_SUBJECTS_SERVLET, request, response);
            // >> changed tbh, 06/2009
            }
            return;
        }
    }
    sb = (SectionBean) sdao.findByPK(sectionId);
    if (eventCRFId == 0) {
        ecb = new EventCRFBean();
        ecb.setCRFVersionId(sb.getCRFVersionId());
        if (currentStudy.getParentStudyId() > 0) {
            // this is a site,find parent
            StudyDAO studydao = new StudyDAO(getDataSource());
            StudyBean parentStudy = (StudyBean) studydao.findByPK(currentStudy.getParentStudyId());
            request.setAttribute("studyTitle", parentStudy.getName());
            request.setAttribute("siteTitle", currentStudy.getName());
        } else {
            request.setAttribute("studyTitle", currentStudy.getName());
        }
    } else {
        ecb = (EventCRFBean) ecdao.findByPK(eventCRFId);
        request.setAttribute(INPUT_EVENT_CRF, ecb);
        request.setAttribute(SECTION_BEAN, sb);
        // This is the StudySubjectBean
        StudySubjectDAO ssdao = new StudySubjectDAO(getDataSource());
        StudySubjectBean sub = (StudySubjectBean) ssdao.findByPK(ecb.getStudySubjectId());
        // This is the SubjectBean
        SubjectDAO subjectDao = new SubjectDAO(getDataSource());
        int subjectId = sub.getSubjectId();
        int studyId = sub.getStudyId();
        SubjectBean subject = (SubjectBean) subjectDao.findByPK(subjectId);
        // Let us process the age
        if (currentStudy.getStudyParameterConfig().getCollectDob().equals("1")) {
            StudyEventDAO sedao = new StudyEventDAO(getDataSource());
            StudyEventBean se = (StudyEventBean) sedao.findByPK(ecb.getStudyEventId());
            StudyEventDefinitionDAO seddao = new StudyEventDefinitionDAO(getDataSource());
            StudyEventDefinitionBean sed = (StudyEventDefinitionBean) seddao.findByPK(se.getStudyEventDefinitionId());
            se.setStudyEventDefinition(sed);
            request.setAttribute("studyEvent", se);
            // YW 11-16-2007 enrollment-date is used for computing age
            age = Utils.getInstacne().processAge(sub.getEnrollmentDate(), subject.getDateOfBirth());
        }
        // Get the study then the parent study
        StudyDAO studydao = new StudyDAO(getDataSource());
        StudyBean study = (StudyBean) studydao.findByPK(studyId);
        if (study.getParentStudyId() > 0) {
            // this is a site,find parent
            StudyBean parentStudy = (StudyBean) studydao.findByPK(study.getParentStudyId());
            request.setAttribute("studyTitle", parentStudy.getName());
            request.setAttribute("siteTitle", study.getName());
        } else {
            request.setAttribute("studyTitle", study.getName());
        }
        request.setAttribute("studySubject", sub);
        request.setAttribute("subject", subject);
        request.setAttribute("age", age);
    }
    // FormBeanUtil formUtil = new FormBeanUtil();
    // DisplaySectionBean newDisplayBean = new DisplaySectionBean();
    boolean hasItemGroup = false;
    // we will look into db to see if any repeating items for this CRF
    // section
    ItemGroupDAO igdao = new ItemGroupDAO(getDataSource());
    List<ItemGroupBean> itemGroups = igdao.findLegitGroupBySectionId(sectionId);
    if (!itemGroups.isEmpty()) {
        hasItemGroup = true;
    }
    // if the List of DisplayFormGroups is empty, then the servlet defers to
    // the prior method
    // of generating a DisplaySectionBean for the application
    DisplaySectionBean dsb;
    // want to get displayBean with grouped and ungrouped items
    request.setAttribute(EVENT_DEF_CRF_BEAN, edcb);
    request.setAttribute(INPUT_EVENT_CRF, ecb);
    request.setAttribute(SECTION_BEAN, sb);
    dsb = super.getDisplayBean(hasItemGroup, false, request, isSubmitted);
    FormDiscrepancyNotes discNotes = (FormDiscrepancyNotes) session.getAttribute(AddNewSubjectServlet.FORM_DISCREPANCY_NOTES_NAME);
    if (discNotes == null) {
        discNotes = new FormDiscrepancyNotes();
        session.setAttribute(AddNewSubjectServlet.FORM_DISCREPANCY_NOTES_NAME, discNotes);
    }
    /*
         * if (hasItemGroup) { //
         * dsb.setDisplayItemGroups(newDisplayBean.getDisplayItemGroups());
         * request.setAttribute("new_table", true); }
         */
    // If the Horizontal type table will be used, then set the
    // DisplaySectionBean's
    // DisplayFormGroups List to the ones we have just generated
    // @pgawade 30-May-2012 Fix for issue 13963 - added an extra parameter
    // 'isSubmitted' to method createItemWithGroups
    List<DisplayItemWithGroupBean> displayItemWithGroups = super.createItemWithGroups(dsb, hasItemGroup, eventDefinitionCRFId, request, isSubmitted);
    dsb.setDisplayItemGroups(displayItemWithGroups);
    super.populateNotesWithDBNoteCounts(discNotes, dsb, request);
    if (fp.getString("fromViewNotes") != null && "1".equals(fp.getString("fromViewNotes"))) {
        request.setAttribute("fromViewNotes", fp.getString("fromViewNotes"));
    } else {
        session.removeAttribute("viewNotesURL");
    }
    if ("saveNotes".equalsIgnoreCase(action)) {
        LOGGER.info("33333how many group rows:" + dsb.getDisplayItemGroups().size());
        // let's save notes for the blank items
        DiscrepancyNoteDAO dndao = new DiscrepancyNoteDAO(getDataSource());
        discNotes = (FormDiscrepancyNotes) session.getAttribute(AddNewSubjectServlet.FORM_DISCREPANCY_NOTES_NAME);
        for (int i = 0; i < dsb.getDisplayItemGroups().size(); i++) {
            DisplayItemWithGroupBean diwb = dsb.getDisplayItemGroups().get(i);
            if (diwb.isInGroup()) {
                List<DisplayItemGroupBean> dgbs = diwb.getItemGroups();
                LOGGER.info("dgbs size: " + dgbs.size());
                for (int j = 0; j < dgbs.size(); j++) {
                    DisplayItemGroupBean displayGroup = dgbs.get(j);
                    List<DisplayItemBean> items = displayGroup.getItems();
                    LOGGER.info("item size: " + items.size());
                    for (DisplayItemBean displayItem : items) {
                        String inputName = getGroupItemInputName(displayGroup, j, displayItem);
                        LOGGER.info("inputName:" + inputName);
                        LOGGER.info("item data id:" + displayItem.getData().getId());
                        AddNewSubjectServlet.saveFieldNotes(inputName, discNotes, dndao, displayItem.getData().getId(), "itemData", currentStudy);
                    }
                }
            } else {
                DisplayItemBean dib = diwb.getSingleItem();
                // TODO work on this line
                String inputName = getInputName(dib);
                AddNewSubjectServlet.saveFieldNotes(inputName, discNotes, dndao, dib.getData().getId(), DiscrepancyNoteBean.ITEM_DATA, currentStudy);
                ArrayList childItems = dib.getChildren();
                for (int j = 0; j < childItems.size(); j++) {
                    DisplayItemBean child = (DisplayItemBean) childItems.get(j);
                    inputName = getInputName(child);
                    AddNewSubjectServlet.saveFieldNotes(inputName, discNotes, dndao, dib.getData().getId(), DiscrepancyNoteBean.ITEM_DATA, currentStudy);
                }
            }
        }
        addPageMessage("Discrepancy notes are saved successfully.", request);
        request.setAttribute("id", studySubjectId + "");
        forwardPage(Page.VIEW_STUDY_SUBJECT_SERVLET, request, response);
        // "ViewStudySubject?id=" + studySubjectId));
        return;
    } else {
        request.setAttribute(BEAN_DISPLAY, dsb);
        request.setAttribute(BEAN_ANNOTATIONS, ecb.getAnnotations());
        request.setAttribute("sec", sb);
        request.setAttribute("EventCRFBean", ecb);
        int tabNum = 1;
        if ("".equalsIgnoreCase(fp.getString("tabId"))) {
            tabNum = 1;
        } else {
            tabNum = fp.getInt("tabId");
        }
        request.setAttribute("tabId", new Integer(tabNum).toString());
        // 2808: Signal interviewer.jsp that the containing page is
        // viewSectionData,
        // for the purpose of suppressing discrepancy note icons for the
        // interview date and name fields
        request.setAttribute(ENCLOSING_PAGE, "viewSectionData");
        if ("yes".equalsIgnoreCase(printVersion)) {
            forwardPage(Page.VIEW_SECTION_DATA_ENTRY_PRINT, request, response);
        } else {
            forwardPage(Page.VIEW_SECTION_DATA_ENTRY, request, response);
        }
    }
}

Example 4 with ItemGroupDAO

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

the class TableOfContentsServlet method getSections.

public static ArrayList getSections(EventCRFBean ecb, DataSource ds) {
    SectionDAO sdao = new SectionDAO(ds);
    ItemGroupDAO igdao = new ItemGroupDAO(ds);
    HashMap numItemsBySectionId = sdao.getNumItemsBySectionId();
    HashMap numItemsPlusRepeatBySectionId = sdao.getNumItemsPlusRepeatBySectionId(ecb);
    HashMap numItemsCompletedBySectionId = sdao.getNumItemsCompletedBySectionId(ecb);
    HashMap numItemsPendingBySectionId = sdao.getNumItemsPendingBySectionId(ecb);
    ArrayList sections = sdao.findAllByCRFVersionId(ecb.getCRFVersionId());
    for (int i = 0; i < sections.size(); i++) {
        SectionBean sb = (SectionBean) sections.get(i);
        int sectionId = sb.getId();
        Integer key = new Integer(sectionId);
        // YW 10-11-2007 << handle number of item completion on tab.
        int numItems = getIntById(numItemsBySectionId, key);
        List<ItemGroupBean> itemGroups = igdao.findLegitGroupBySectionId(sectionId);
        if (!itemGroups.isEmpty()) {
            // this section has repeating rows-jxu
            int numItemsPlusRepeat = getIntById(numItemsPlusRepeatBySectionId, key);
            if (numItemsPlusRepeat > numItems) {
                sb.setNumItems(numItemsPlusRepeat);
            } else {
                sb.setNumItems(numItems);
            }
        } else {
            sb.setNumItems(numItems);
        }
        // According to logic that I searched from code of this package by
        // this time,
        // for double data entry and stage.initial_data_entry,
        // pending should be the status in query.
        int numItemsCompleted = getIntById(numItemsCompletedBySectionId, key);
        // the following is removed to fix issue 2091-jxu
        // if(numItemsCompleted == 0) {
        // numItemsCompleted = getIntById(numItemsPendingBySectionId, key) ;
        // }
        sb.setNumItemsCompleted(numItemsCompleted);
        // YW >>
        sb.setNumItemsNeedingValidation(getIntById(numItemsPendingBySectionId, key));
        sections.set(i, sb);
    }
    return sections;
}

Example 5 with ItemGroupDAO

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

the class UrlRewriteServlet method getOpenClinicaResourceFromURL.

/**
 * Method to parse the request URL parameters and get the respective
 * database identifiers
 *
 * @param URLPath
 *            - example "S_CPCS/320999/SE_CPCS%5B1%5D/F_CPCS_1"
 * @param queryString
 *            - example
 *            "format=html&mode=view&tabId=1&exitTo=ViewStudySubject"
 * @return
 */
public OpenClinicaResource getOpenClinicaResourceFromURL(String URLPath) /*
                                                                            * ,
                                                                            * String
                                                                            * queryString
                                                                            */
{
    OpenClinicaResource openClinicaResource = new OpenClinicaResource();
    if ((null != URLPath) && (!URLPath.equals(""))) {
        if (URLPath.contains("/")) {
            String[] tokens = URLPath.split("/");
            if (tokens.length != 0) {
                String URLParamValue = "";
                StudyDAO stdao = new StudyDAO(getDataSource());
                StudySubjectDAO ssubdao = new StudySubjectDAO(getDataSource());
                StudyEventDefinitionDAO sedefdao = new StudyEventDefinitionDAO(getDataSource());
                CRFDAO crfdao = new CRFDAO(getDataSource());
                CRFVersionDAO crfvdao = new CRFVersionDAO(getDataSource());
                ItemDAO idao = new ItemDAO(getDataSource());
                ItemGroupDAO igdao = new ItemGroupDAO(getDataSource());
                StudyEventDAO sedao = new StudyEventDAO(getDataSource());
                StudyBean study = null;
                StudySubjectBean subject = null;
                StudyEventDefinitionBean sed = null;
                CRFBean c = null;
                CRFVersionBean cv = null;
                ItemBean item = null;
                ItemGroupBean ig = null;
                StudyEventBean studyEvent = null;
                Integer studySubjectId = 0;
                Integer eventDefId = 0;
                Integer eventRepeatKey = 0;
                for (int i = 0; i < tokens.length; i++) {
                    // when interpreting these request URL parameters, the
                    // assumption is that the position of
                    // each type of parameters will be fixed. Meaning, study
                    // OID is always going to be at the start
                    // followed by StudySubjectKey followed by study event
                    // definition OID followed by
                    // study event repeat key followed by form OID followed
                    // by item group OID followed by
                    // item group repeat key followed by item OID
                    // It can also be done based on the start of OID value
                    // (example study OID presently
                    // starts with 'S_' but we will have to change it if we
                    // change the method of generating
                    // oID values in future.
                    URLParamValue = tokens[i].trim();
                    // System.out.println("URLParamValue::"+URLParamValue);
                    logger.info("URLPAramValue::" + URLParamValue);
                    if ((null != URLParamValue) && (!URLParamValue.equals(""))) {
                        switch(i) {
                            case 0:
                                {
                                    // study OID
                                    study = stdao.findByOid(URLParamValue);
                                    // validate study OID
                                    if (study == null) {
                                        openClinicaResource.setInValid(true);
                                        openClinicaResource.getMessages().add(resexception.getString("invalid_study_oid"));
                                        return openClinicaResource;
                                    } else {
                                        openClinicaResource.setStudyOID(URLParamValue);
                                        if (null != study) {
                                            openClinicaResource.setStudyID(study.getId());
                                        }
                                    }
                                    break;
                                }
                            case 1:
                                {
                                    // StudySubjectKey
                                    subject = ssubdao.findByOidAndStudy(URLParamValue, study.getId());
                                    // validate subject OID
                                    if (subject == null) {
                                        openClinicaResource.setInValid(true);
                                        openClinicaResource.getMessages().add(resexception.getString("invalid_subject_oid"));
                                        return openClinicaResource;
                                    } else {
                                        openClinicaResource.setStudySubjectOID(URLParamValue);
                                        if (null != subject) {
                                            studySubjectId = subject.getId();
                                            openClinicaResource.setStudySubjectID(studySubjectId);
                                        }
                                    }
                                    break;
                                }
                            case 2:
                                {
                                    // study event definition OID
                                    // separate study event OID and study event
                                    // repeat key
                                    String seoid = "";
                                    String eventOrdinal = "";
                                    if (URLParamValue.contains("%5B") && URLParamValue.contains("%5D")) {
                                        seoid = URLParamValue.substring(0, URLParamValue.indexOf("%5B"));
                                        openClinicaResource.setStudyEventDefOID(seoid);
                                        eventOrdinal = URLParamValue.substring(URLParamValue.indexOf("%5B") + 3, URLParamValue.indexOf("%5D"));
                                    } else if (URLParamValue.contains("[") && URLParamValue.contains("]")) {
                                        seoid = URLParamValue.substring(0, URLParamValue.indexOf("["));
                                        logger.info("seoid" + seoid);
                                        openClinicaResource.setStudyEventDefOID(seoid);
                                        eventOrdinal = URLParamValue.substring(URLParamValue.indexOf("[") + 1, URLParamValue.indexOf("]"));
                                        logger.info("eventOrdinal::" + eventOrdinal);
                                    } else {
                                        // event ordinal not specified
                                        openClinicaResource.setInValid(true);
                                        openClinicaResource.getMessages().add(resexception.getString("event_ordinal_not_specified"));
                                        return openClinicaResource;
                                    }
                                    if ((null != seoid) && (null != study)) {
                                        sed = sedefdao.findByOidAndStudy(seoid, study.getId(), study.getParentStudyId());
                                        // validate study event oid
                                        if (null == sed) {
                                            openClinicaResource.setInValid(true);
                                            openClinicaResource.getMessages().add(resexception.getString("invalid_event_oid"));
                                            return openClinicaResource;
                                        } else {
                                            eventDefId = sed.getId();
                                            openClinicaResource.setStudyEventDefID(eventDefId);
                                        }
                                    }
                                    if (null != eventRepeatKey) {
                                        eventRepeatKey = Integer.parseInt(eventOrdinal.trim());
                                        // validate the event ordinal specified exists in database
                                        studyEvent = (StudyEventBean) sedao.findByStudySubjectIdAndDefinitionIdAndOrdinal(subject.getId(), sed.getId(), eventRepeatKey);
                                        // this method return new StudyEvent (not null) even if no studyEvent can be found
                                        if (null == studyEvent || studyEvent.getId() == 0) {
                                            openClinicaResource.setInValid(true);
                                            openClinicaResource.getMessages().add(resexception.getString("invalid_event_ordinal"));
                                            return openClinicaResource;
                                        } else {
                                            openClinicaResource.setStudyEventRepeatKey(eventRepeatKey);
                                        }
                                    }
                                    break;
                                }
                            case 3:
                                {
                                    // form OID
                                    openClinicaResource.setFormVersionOID(URLParamValue);
                                    // validate the crf version oid
                                    cv = crfvdao.findByOid(URLParamValue);
                                    if (cv == null) {
                                        openClinicaResource.setInValid(true);
                                        openClinicaResource.getMessages().add(resexception.getString("invalid_crf_oid"));
                                        return openClinicaResource;
                                    } else {
                                        openClinicaResource.setFormVersionID(cv.getId());
                                        // validate if crf is removed
                                        if (cv.getStatus().equals(Status.DELETED)) {
                                            openClinicaResource.setInValid(true);
                                            openClinicaResource.getMessages().add(resexception.getString("removed_crf"));
                                            return openClinicaResource;
                                        } else {
                                            if (null != study) {
                                                // cv =
                                                // crfvdao.findByCrfVersionOidAndStudy(URLParamValue,
                                                // study.getId());
                                                // if (null != cv) {
                                                // openClinicaResource.setFormVersionID(cv.getId());
                                                // openClinicaResource.setFormID(cv.getCrfId());
                                                // }
                                                HashMap studySubjectCRFDataDetails = sedao.getStudySubjectCRFData(study, studySubjectId, eventDefId, URLParamValue, eventRepeatKey);
                                                if ((null != studySubjectCRFDataDetails) && (studySubjectCRFDataDetails.size() != 0)) {
                                                    if (studySubjectCRFDataDetails.containsKey("event_crf_id")) {
                                                        openClinicaResource.setEventCrfId((Integer) studySubjectCRFDataDetails.get("event_crf_id"));
                                                    }
                                                    if (studySubjectCRFDataDetails.containsKey("event_definition_crf_id")) {
                                                        openClinicaResource.setEventDefinitionCrfId((Integer) studySubjectCRFDataDetails.get("event_definition_crf_id"));
                                                    }
                                                    if (studySubjectCRFDataDetails.containsKey("study_event_id")) {
                                                        openClinicaResource.setStudyEventId((Integer) studySubjectCRFDataDetails.get("study_event_id"));
                                                    }
                                                } else {
                                                    // no data was found in the database for the combination of parameters in the RESTful URL. There are 2 possible reasons:
                                                    // a. The data entry is not started yet for this event CRF. As of OpenClinica 3.1.3 we have not implemented the
                                                    // RESTful URL functionality in this case.
                                                    // b. The form version OID entered in the URL could be different than the one used in the data entry
                                                    openClinicaResource.setInValid(true);
                                                    openClinicaResource.getMessages().add(resexception.getString("either_no_data_for_crf_or_data_entry_not_started"));
                                                    return openClinicaResource;
                                                }
                                            }
                                        }
                                    }
                                    break;
                                }
                            case 4:
                                {
                                    // item group OID
                                    // separate item group OID and item group
                                    // repeat key
                                    String igoid = "";
                                    String igRepeatKey = "";
                                    if (URLParamValue.contains("[")) {
                                        igoid = URLParamValue.substring(1, URLParamValue.indexOf("["));
                                        igRepeatKey = URLParamValue.substring(URLParamValue.indexOf("["), URLParamValue.indexOf("}]"));
                                    }
                                    if ((null != igoid) && (null != cv)) {
                                        ig = igdao.findByOidAndCrf(URLParamValue, cv.getCrfId());
                                        if (null != ig) {
                                            openClinicaResource.setItemGroupID(ig.getId());
                                        }
                                    }
                                    if (null != igRepeatKey) {
                                        openClinicaResource.setItemGroupRepeatKey(Integer.parseInt(igRepeatKey));
                                    }
                                    break;
                                }
                            case 5:
                                {
                                    // item = idao.find
                                    break;
                                }
                        }
                    // switch end
                    }
                }
            }
        }
    }
    return openClinicaResource;
}