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

Example 6 with ItemGroupMetadataDAO

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

the class OpenRosaXmlGenerator method getItemGroupMetadataByGroup.

@SuppressWarnings({ "unchecked", "rawtypes" })
private ItemGroupMetadataBean getItemGroupMetadataByGroup(ItemGroupBean itemGroupBean, CRFVersionBean crfVersion) throws Exception {
    ArrayList<ItemGroupMetadataBean> itemGroupMetadataBean = null;
    ItemGroupMetadataDAO itemGroupMetadataDAO = new ItemGroupMetadataDAO(dataSource);
    itemGroupMetadataBean = (ArrayList<ItemGroupMetadataBean>) itemGroupMetadataDAO.findMetaByGroupAndCrfVersion(itemGroupBean.getId(), crfVersion.getId());
    return itemGroupMetadataBean.get(0);
}

Example 7 with ItemGroupMetadataDAO

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

the class CRFVersionMetadataUtil method retrieveFormMetadata.

/**
     * Builds and returns an ArrayList of SectionBeans that comprise the metadata of a CRFVersion.
     */
public ArrayList<SectionBean> retrieveFormMetadata(FormLayoutBean formLayout) throws Exception {
    ItemDAO idao = new ItemDAO(dataSource);
    ItemFormMetadataDAO ifmdao = new ItemFormMetadataDAO(dataSource);
    // tbh, 102007
    SectionDAO sdao = new SectionDAO(dataSource);
    ItemGroupDAO igdao = new ItemGroupDAO(dataSource);
    ItemGroupMetadataDAO igmdao = new ItemGroupMetadataDAO(dataSource);
    ArrayList sections = (ArrayList) sdao.findByLayoutId(formLayout.getId());
    HashMap versionMap = new HashMap();
    for (int i = 0; i < sections.size(); i++) {
        SectionBean section = (SectionBean) sections.get(i);
        versionMap.put(new Integer(section.getId()), section.getItems());
        // YW 08-21-2007, add group metadata
        ArrayList<ItemGroupBean> igs = (ArrayList<ItemGroupBean>) igdao.findGroupByLayoutId(formLayout.getId());
        for (int j = 0; j < igs.size(); ++j) {
            ArrayList<ItemGroupMetadataBean> igms = (ArrayList<ItemGroupMetadataBean>) igmdao.findMetaByGroupAndSection(igs.get(j).getId(), section.getCRFVersionId(), section.getId());
            if (!igms.isEmpty()) {
                // Note, the following logic has been adapted here -
                // "for a given crf version,
                // all the items in the same group have the same group
                // metadata
                // so we can get one of them and set metadata for the
                // group"
                igs.get(j).setMeta(igms.get(0));
                igs.get(j).setItemGroupMetaBeans(igms);
            }
        }
        ((SectionBean) sections.get(i)).setGroups(igs);
    // YW >>
    }
    ArrayList items = idao.findAllItemsByLayoutId(formLayout.getId());
    // then different query will be used
    if (igmdao.versionIncluded(formLayout.getId())) {
        for (int i = 0; i < items.size(); i++) {
            ItemBean item = (ItemBean) items.get(i);
            ItemFormMetadataBean ifm = ifmdao.findByItemIdAndFormLayoutId(item.getId(), formLayout.getId());
            item.setItemMeta(ifm);
            // logger.info("option******" +
            // ifm.getResponseSet().getOptions().size());
            ArrayList its = (ArrayList) versionMap.get(new Integer(ifm.getSectionId()));
            its.add(item);
        }
    } else {
        for (int i = 0; i < items.size(); i++) {
            ItemBean item = (ItemBean) items.get(i);
            ItemFormMetadataBean ifm = ifmdao.findByItemIdAndFormLayoutIdNotInIGM(item.getId(), formLayout.getId());
            item.setItemMeta(ifm);
            // logger.info("option******" +
            // ifm.getResponseSet().getOptions().size());
            ArrayList its = (ArrayList) versionMap.get(new Integer(ifm.getSectionId()));
            its.add(item);
        }
    }
    for (int i = 0; i < sections.size(); i++) {
        SectionBean section = (SectionBean) sections.get(i);
        section.setItems((ArrayList) versionMap.get(new Integer(section.getId())));
    }
    return sections;
}

Example 8 with ItemGroupMetadataDAO

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

the class ViewItemDetailServlet method processRequest.

@Override
public void processRequest() throws Exception {
    FormProcessor fp = new FormProcessor(request);
    int itemId = fp.getInt(ITEM_ID);
    String itemOid = fp.getString(ITEM_OID);
    ItemDAO idao = new ItemDAO(sm.getDataSource());
    ItemFormMetadataDAO ifmdao = new ItemFormMetadataDAO(sm.getDataSource());
    ItemGroupMetadataDAO igmdao = new ItemGroupMetadataDAO(sm.getDataSource());
    CRFVersionDAO cvdao = new CRFVersionDAO(sm.getDataSource());
    CRFDAO cdao = new CRFDAO(sm.getDataSource());
    SectionDAO sectionDao = new SectionDAO(sm.getDataSource());
    if (itemId == 0 && itemOid == null) {
        addPageMessage(respage.getString("please_choose_an_item_first"));
        forwardPage(Page.ITEM_DETAIL);
        return;
    }
    ItemBean item = itemId > 0 ? (ItemBean) idao.findByPK(itemId) : (ItemBean) idao.findByOid(itemOid).get(0);
    ArrayList versions = idao.findAllVersionsByItemId(item.getId());
    ArrayList versionItems = new ArrayList();
    CRFBean crf = null;
    ItemFormMetadataBean imfBean = null;
    // finds each item metadata for each version
    for (int i = 0; i < versions.size(); i++) {
        Integer versionId = (Integer) versions.get(i);
        CRFVersionBean version = (CRFVersionBean) cvdao.findByPK(versionId.intValue());
        if (versionId != null && versionId.intValue() > 0) {
            // YW 08-22-2007
            if (igmdao.versionIncluded(versionId)) {
                imfBean = ifmdao.findByItemIdAndCRFVersionId(item.getId(), versionId.intValue());
                imfBean.setCrfVersionName(version.getName());
                crf = (CRFBean) cdao.findByPK(version.getCrfId());
                imfBean.setCrfName(crf.getName());
                versionItems.add(imfBean);
            } else {
                imfBean = ifmdao.findByItemIdAndCRFVersionIdNotInIGM(item.getId(), versionId.intValue());
                imfBean.setCrfVersionName(version.getName());
                crf = (CRFBean) cdao.findByPK(version.getCrfId());
                imfBean.setCrfName(crf.getName());
                versionItems.add(imfBean);
            }
        }
    }
    SectionBean section = (SectionBean) sectionDao.findByPK(imfBean.getSectionId());
    request.setAttribute(VERSION_ITEMS, versionItems);
    request.setAttribute(ITEM_BEAN, item);
    request.setAttribute("crf", crf);
    request.setAttribute("section", section);
    request.setAttribute("ifmdBean", imfBean);
    forwardPage(Page.ITEM_DETAIL);
}

Example 9 with ItemGroupMetadataDAO

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

the class ResolveDiscrepancyServlet method prepareRequestForResolution.

public boolean prepareRequestForResolution(HttpServletRequest request, DataSource ds, StudyBean currentStudy, DiscrepancyNoteBean note, boolean isCompleted) throws Exception {
    String entityType = note.getEntityType().toLowerCase();
    int id = note.getEntityId();
    if ("subject".equalsIgnoreCase(entityType)) {
        StudySubjectDAO ssdao = new StudySubjectDAO(ds);
        StudySubjectBean ssb = ssdao.findBySubjectIdAndStudy(id, currentStudy);
        request.setAttribute("action", "show");
        request.setAttribute("id", String.valueOf(note.getEntityId()));
        request.setAttribute("studySubId", String.valueOf(ssb.getId()));
    } else if ("studysub".equalsIgnoreCase(entityType)) {
        request.setAttribute("action", "show");
        request.setAttribute("id", String.valueOf(note.getEntityId()));
    } else if ("eventcrf".equalsIgnoreCase(entityType)) {
        request.setAttribute("editInterview", "1");
        EventCRFDAO ecdao = new EventCRFDAO(ds);
        EventCRFBean ecb = (EventCRFBean) ecdao.findByPK(id);
        request.setAttribute(TableOfContentsServlet.INPUT_EVENT_CRF_BEAN, ecb);
        // If the request is passed along to ViewSectionDataEntryServlet,
        // that code needs
        // an event crf id; the (ecb.getId()+"") is necessary because
        // FormProcessor throws
        // a ClassCastException without the casting to a String
        request.setAttribute(ViewSectionDataEntryServlet.EVENT_CRF_ID, ecb.getId() + "");
    } else if ("studyevent".equalsIgnoreCase(entityType)) {
        StudyEventDAO sedao = new StudyEventDAO(ds);
        StudyEventBean seb = (StudyEventBean) sedao.findByPK(id);
        request.setAttribute(EnterDataForStudyEventServlet.INPUT_EVENT_ID, String.valueOf(id));
        request.setAttribute(UpdateStudyEventServlet.EVENT_ID, String.valueOf(id));
        request.setAttribute(UpdateStudyEventServlet.STUDY_SUBJECT_ID, String.valueOf(seb.getStudySubjectId()));
    } else // this is for item data
    if ("itemdata".equalsIgnoreCase(entityType)) {
        ItemDataDAO iddao = new ItemDataDAO(ds);
        ItemDAO idao = new ItemDAO(ds);
        ItemDataBean idb = (ItemDataBean) iddao.findByPK(id);
        ItemBean item = (ItemBean) idao.findByPK(idb.getItemId());
        ItemGroupMetadataDAO igmdao = new ItemGroupMetadataDAO<>(ds);
        EventCRFDAO ecdao = new EventCRFDAO(ds);
        EventCRFBean ecb = (EventCRFBean) ecdao.findByPK(idb.getEventCRFId());
        FormLayoutDAO fldao = new FormLayoutDAO(ds);
        FormLayoutBean formLayout = (FormLayoutBean) fldao.findByPK(ecb.getFormLayoutId());
        StudyEventDAO sedao = new StudyEventDAO(ds);
        StudySubjectDAO ssdao = new StudySubjectDAO(sm.getDataSource());
        StudySubjectBean ssb = (StudySubjectBean) ssdao.findByPK(ecb.getStudySubjectId());
        ItemFormMetadataDAO ifmdao = new ItemFormMetadataDAO(ds);
        ItemFormMetadataBean ifmb = ifmdao.findByItemIdAndCRFVersionId(idb.getItemId(), ecb.getFormLayoutId());
        ItemGroupMetadataBean igmBean = (ItemGroupMetadataBean) igmdao.findByItemAndCrfVersion(idb.getItemId(), ecb.getCRFVersionId());
        ItemGroupDAO igdao = new ItemGroupDAO<>(ds);
        ItemGroupBean igBean = (ItemGroupBean) igdao.findByPK(igmBean.getItemGroupId());
        int repeatOrdinal = idb.getOrdinal();
        ItemDataBean idata = null;
        if (idb != null && idb.isDeleted()) {
            return false;
        }
        if (igmBean.isRepeatingGroup() && repeatOrdinal > 1) {
            List<ItemGroupMetadataBean> igms = igmdao.findMetaByGroupAndCrfVersion(igBean.getId(), ecb.getCRFVersionId());
            for (int i = 0; i < idb.getOrdinal(); i++) {
                for (ItemGroupMetadataBean igm : igms) {
                    idata = iddao.findByItemIdAndEventCRFIdAndOrdinal(igm.getItemId(), ecb.getId(), i + 1);
                    if (idata != null && idata.isDeleted()) {
                        repeatOrdinal--;
                        break;
                    }
                }
            }
        }
        EnketoUrlService enketoUrlService = (EnketoUrlService) SpringServletAccess.getApplicationContext(context).getBean("enketoUrlService");
        StudyEventBean seb = (StudyEventBean) sedao.findByPK(ecb.getStudyEventId());
        // Cache the subject context for use during xform submission
        PFormCache cache = PFormCache.getInstance(context);
        PFormCacheSubjectContextEntry subjectContext = new PFormCacheSubjectContextEntry();
        subjectContext.setStudySubjectOid(ssb.getOid());
        subjectContext.setStudyEventDefinitionId(seb.getStudyEventDefinitionId());
        subjectContext.setOrdinal(seb.getSampleOrdinal());
        subjectContext.setFormLayoutOid(formLayout.getOid());
        subjectContext.setUserAccountId(ub.getId());
        subjectContext.setItemName(item.getName() + COMMENT);
        subjectContext.setItemRepeatOrdinal(repeatOrdinal);
        subjectContext.setItemInRepeatingGroup(igmBean.isRepeatingGroup());
        subjectContext.setItemRepeatGroupName(igBean.getLayoutGroupPath());
        String contextHash = cache.putSubjectContext(subjectContext);
        String formUrl = null;
        if (ecb.getId() > 0) {
            formUrl = enketoUrlService.getEditUrl(contextHash, subjectContext, currentStudy.getOid(), null, null, QUERY_FLAVOR);
        } else {
            formUrl = enketoUrlService.getInitialDataEntryUrl(contextHash, subjectContext, currentStudy.getOid(), QUERY_FLAVOR);
        }
        int hashIndex = formUrl.lastIndexOf("#");
        String part1 = formUrl;
        String part2 = "";
        if (hashIndex != -1) {
            part1 = formUrl.substring(0, hashIndex);
            part2 = formUrl.substring(hashIndex);
        }
        request.setAttribute(EnketoFormServlet.FORM_URL1, part1);
        request.setAttribute(EnketoFormServlet.FORM_URL2, part2);
    }
    return true;
}

Example 10 with ItemGroupMetadataDAO

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

the class DataEntryServlet method isEachRequiredFieldFillout.

protected boolean isEachRequiredFieldFillout(HttpServletRequest request) {
    HttpSession session = request.getSession();
    EventCRFBean ecb = (EventCRFBean) request.getAttribute(INPUT_EVENT_CRF);
    DiscrepancyNoteDAO dndao = new DiscrepancyNoteDAO(getDataSource());
    // need to update this method to accomodate dynamics, tbh
    ItemDataDAO iddao = new ItemDataDAO(getDataSource(), locale);
    ItemDAO idao = new ItemDAO(getDataSource());
    ItemFormMetadataDAO itemFormMetadataDao = new ItemFormMetadataDAO(getDataSource());
    // Below code will iterate all shown and hidden required fields/items in a crf version and verify if the data field is filled up with value or if not , then it is a hidden field with no show rule triggered for the item.        
    ArrayList<ItemFormMetadataBean> shownRequiredAllItemsInCrfVersion = itemFormMetadataDao.findAllItemsRequiredAndShownByCrfVersionId(ecb.getCRFVersionId());
    ArrayList<ItemFormMetadataBean> hiddenRequiredAllItemsInCrfVersion = itemFormMetadataDao.findAllItemsRequiredAndHiddenByCrfVersionId(ecb.getCRFVersionId());
    ItemGroupMetadataDAO<String, ArrayList> igdao = new ItemGroupMetadataDAO<String, ArrayList>(dataSource);
    ArrayList<ItemDataBean> itemdatas = null;
    for (ItemFormMetadataBean shownItemMeta : shownRequiredAllItemsInCrfVersion) {
        ItemGroupMetadataBean igBean = (ItemGroupMetadataBean) igdao.findByItemAndCrfVersion(shownItemMeta.getItemId(), ecb.getCRFVersionId());
        // verifies if the group that the item belongs to is not hidden.
        if (igBean != null && igBean.isShowGroup()) {
            itemdatas = iddao.findAllByEventCRFIdAndItemId(ecb.getId(), shownItemMeta.getItemId());
            if (itemdatas == null || itemdatas.size() == 0)
                return false;
            for (ItemDataBean itemdata : itemdatas) {
                System.out.println(itemdata.getItemId() + "  :  " + itemdata.getValue());
                if ((itemdata.getValue() == null || itemdata.getValue().equals("") || itemdata.getValue().trim().length() == 0) && dndao.findNumExistingNotesForItem(itemdata.getId()) < 1) {
                    return false;
                }
            }
        }
        ArrayList<DynamicsItemFormMetadataBean> dynamicsItemFormMetadataBeans = null;
        for (ItemFormMetadataBean hiddenItemMeta : hiddenRequiredAllItemsInCrfVersion) {
            itemdatas = iddao.findAllByEventCRFIdAndItemId(ecb.getId(), hiddenItemMeta.getItemId());
            dynamicsItemFormMetadataBeans = getItemMetadataService().getDynamicsItemFormMetadataDao().findByItemAndEventCrfShown(ecb, hiddenItemMeta.getItemId());
            if (itemdatas.size() == 0 && dynamicsItemFormMetadataBeans.size() > 0) {
                return false;
            }
            for (ItemDataBean itemdata : itemdatas) {
                if ((itemdata.getValue() == null || itemdata.getValue().equals("") || itemdata.getValue().trim().length() == 0) && dndao.findNumExistingNotesForItem(itemdata.getId()) < 1 && dynamicsItemFormMetadataBeans.size() > 0) {
                    return false;
                }
            }
        }
    }
    // had to change the query below to allow for hidden items here, tbh 04/2010
    ArrayList allFilled = iddao.findAllBlankRequiredByEventCRFId(ecb.getId(), ecb.getCRFVersionId());
    int numNotes = 0;
    if (!allFilled.isEmpty()) {
        LOGGER.trace("allFilled is not empty");
        FormDiscrepancyNotes fdn = (FormDiscrepancyNotes) session.getAttribute(AddNewSubjectServlet.FORM_DISCREPANCY_NOTES_NAME);
        HashMap idNotes = fdn.getIdNotes();
        for (int i = 0; i < allFilled.size(); i++) {
            ItemDataBean idb = (ItemDataBean) allFilled.get(i);
            int exsitingNotes = dndao.findNumExistingNotesForItem(idb.getId());
            if (exsitingNotes > 0) {
                LOGGER.trace("has existing note");
                numNotes++;
            } else if (idNotes.containsKey(idb.getId())) {
                LOGGER.trace("has note in session");
                numNotes++;
            }
        }
        LOGGER.trace("numNotes allFilled.size:" + numNotes + " " + allFilled.size());
        if (numNotes >= allFilled.size()) {
            LOGGER.trace("all required are filled out");
            return true;
        } else {
            LOGGER.debug("numNotes < allFilled.size() " + numNotes + ": " + allFilled.size());
            return false;
        }
    }
    return true;
}