Пример #1
0
  public EntityBean update(EntityBean eb) {
    ItemDataBean idb = (ItemDataBean) eb;

    idb.setActive(false);

    HashMap variables = new HashMap();
    variables.put(new Integer(1), new Integer(idb.getEventCRFId()));
    variables.put(new Integer(2), new Integer(idb.getItemId()));
    variables.put(new Integer(3), new Integer(idb.getStatus().getId()));
    variables.put(new Integer(4), idb.getValue());
    variables.put(new Integer(5), new Integer(idb.getUpdaterId()));
    variables.put(new Integer(6), new Integer(idb.getId()));
    this.execute(digester.getQuery("update"), variables);

    if (isQuerySuccessful()) {
      idb.setActive(true);
    }

    return idb;
  }
  @Override
  public void processRequest() throws Exception {
    FormProcessor fp = new FormProcessor(request);
    int studySubId = fp.getInt(STUDY_SUB_ID, true);
    int eventCRFId = fp.getInt(EVENT_CRF_ID);

    String action = request.getParameter("action");

    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_delete"));
      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());
      dnDao = new DiscrepancyNoteDAO(sm.getDataSource());
      ArrayList<ItemDataBean> itemData = iddao.findAllByEventCRFId(eventCRF.getId());
      request.setAttribute("items", itemData);

      if ("confirm".equalsIgnoreCase(action)) {

        request.setAttribute("displayEventCRF", dec);

        forwardPage(Page.DELETE_EVENT_CRF);
      } else {
        logger.info("submit to delete the event CRF from event");

        // OC-6303  Deleting Event CRF resets Show / Hide logic
        // delete records from DynamicItemForm and DynamicItemGroup
        getDynamicsItemFormMetadataDao().delete(eventCRFId);
        getDynamicsItemGroupMetadataDao().delete(eventCRFId);

        eventCRF.setOldStatus(eventCRF.getStatus());
        eventCRF.setStatus(Status.RESET);
        eventCRF.setUpdater(ub);
        ecdao.update(eventCRF);

        for (ItemDataBean itemdata : itemData) {
          // OC-6343 Rule behaviour must be reset if an Event CRF is deleted
          // delete the records from ruleActionRunLogDao
          getRuleActionRunLogDao().delete(itemdata.getId());

          // OC-6344 Notes & Discrepancies must be set to "closed" when event CRF is deleted
          // parentDiscrepancyNoteList is the list of the parent DNs records only
          ArrayList<DiscrepancyNoteBean> parentDiscrepancyNoteList =
              getDnDao().findParentNotesOnlyByItemData(itemdata.getId());
          for (DiscrepancyNoteBean parentDiscrepancyNote : parentDiscrepancyNoteList) {
            if (parentDiscrepancyNote.getResolutionStatusId()
                != 4) { // if the DN's resolution status is not set to Closed
              String description = resword.getString("dn_auto-closed_description");
              String detailedNotes = resword.getString("dn_auto_closed_detailed_notes");
              // create new DN record , new DN Map record , also update the parent record
              createDiscrepancyNoteBean(
                  description, detailedNotes, itemdata.getId(), study, ub, parentDiscrepancyNote);
            }
          }
          iddao = new ItemDataDAO(sm.getDataSource());
          ifmdao = new ItemFormMetadataDAO(sm.getDataSource());
          ItemDataBean idBean = (ItemDataBean) iddao.findByPK(itemdata.getId());

          ItemFormMetadataBean ifmBean =
              ifmdao.findByItemIdAndCRFVersionId(idBean.getItemId(), crfVersionId);

          // Updating Dn_item_data_map actovated column into false for the existing DNs
          ArrayList<DiscrepancyNoteBean> dnBeans =
              getDnDao().findExistingNotesForItemData(itemdata.getId());
          if (dnBeans.size() != 0) {
            DiscrepancyNoteBean dnBean = new DiscrepancyNoteBean();
            dnBean.setEntityId(itemdata.getId());
            dnBean.setActivated(false);
            getDnDao().updateDnMapActivation(dnBean);
          }

          // Default Values are not addressed

          itemdata.setValue("");
          itemdata.setOldStatus(itemdata.getStatus());
          itemdata.setOwner(ub);
          itemdata.setStatus(Status.AVAILABLE);
          itemdata.setUpdater(ub);
          iddao.updateUser(itemdata);
          iddao.update(itemdata);
        }
        // OC-6291 event_crf status change

        eventCRF.setOldStatus(eventCRF.getStatus());
        eventCRF.setStatus(Status.AVAILABLE);
        eventCRF.setUpdater(ub);
        ecdao.update(eventCRF);

        if (event.getSubjectEventStatus().isCompleted()
            || event.getSubjectEventStatus().isSigned()) {
          event.setSubjectEventStatus(SubjectEventStatus.DATA_ENTRY_STARTED);
          event.setUpdater(ub);
          sedao = new StudyEventDAO(sm.getDataSource());
          sedao.update(event);
        }

        String emailBody =
            respage.getString("the_event_CRF")
                + cb.getName()
                + respage.getString("has_been_deleted_from_the_event")
                + event.getStudyEventDefinition().getName()
                + ". "
                + respage.getString("has_been_deleted_from_the_event_cont");

        addPageMessage(emailBody);
        // sendEmail(emailBody);
        request.setAttribute("id", new Integer(studySubId).toString());
        forwardPage(Page.VIEW_STUDY_SUBJECT_SERVLET);
      }
    }
  }
  @Override
  @SuppressWarnings(value = "unchecked")
  public void processRequest() throws Exception {
    ItemDataDAO itemDataDao = new ItemDataDAO(sm.getDataSource());
    EventCRFDAO eventCrfDao = new EventCRFDAO(sm.getDataSource());
    CrfBusinessLogicHelper crfBusinessLogicHelper = new CrfBusinessLogicHelper(sm.getDataSource());
    String action = request.getParameter("action");

    FormProcessor fp = new FormProcessor(request);

    // checks which module the requests are from
    String module = fp.getString(MODULE);
    request.setAttribute(MODULE, module);

    resetPanel();
    panel.setStudyInfoShown(false);
    panel.setOrderedData(true);

    setToPanel(resword.getString("create_CRF"), respage.getString("br_create_new_CRF_entering"));

    setToPanel(
        resword.getString("create_CRF_version"), respage.getString("br_create_new_CRF_uploading"));
    setToPanel(
        resword.getString("revise_CRF_version"), respage.getString("br_if_you_owner_CRF_version"));
    setToPanel(
        resword.getString("CRF_spreadsheet_template"),
        respage.getString("br_download_blank_CRF_spreadsheet_from"));
    setToPanel(
        resword.getString("example_CRF_br_spreadsheets"),
        respage.getString("br_download_example_CRF_instructions_from"));

    if ("confirm".equalsIgnoreCase(action)) {
      List<DisplayItemBeanWrapper> displayItemBeanWrappers =
          (List<DisplayItemBeanWrapper>) session.getAttribute("importedData");
      logger.info("Size of displayItemBeanWrappers : " + displayItemBeanWrappers.size());
      forwardPage(Page.VERIFY_IMPORT_CRF_DATA);
    }

    if ("save".equalsIgnoreCase(action)) {
      List<DisplayItemBeanWrapper> displayItemBeanWrappers =
          (List<DisplayItemBeanWrapper>) session.getAttribute("importedData");
      // System.out.println("Size of displayItemBeanWrappers : " + displayItemBeanWrappers.size());

      for (DisplayItemBeanWrapper wrapper : displayItemBeanWrappers) {

        int eventCrfBeanId = -1;
        EventCRFBean eventCrfBean = new EventCRFBean();

        // TODO : tom , the wrapper object has all the necessary data -
        // as you see we check the
        // is to see if this data is Savable if it is then we go ahead
        // and save it. if not we discard.
        // So the change needs to happen here , instead of discarding we
        // need to file discrepancy notes
        // and save the data. If you look in the
        // Page.VERIFY_IMPORT_CRF_DATA jsp file you can see how I am
        // pulling the errors. and use that in the same way.

        logger.info("right before we check to make sure it is savable: " + wrapper.isSavable());
        if (wrapper.isSavable()) {
          ArrayList<Integer> eventCrfInts = new ArrayList<Integer>();
          // based on the use case: "If any of the data does not meet
          // validations specified in the CRF
          // Template, a discrepancy note is automatically logged.
          // The DN will have a type of Failed Validation Check, and
          // a message of Failed Validation check."
          // System.out.println("wrapper problems found : " +
          // wrapper.getValidationErrors().toString());
          for (DisplayItemBean displayItemBean : wrapper.getDisplayItemBeans()) {
            eventCrfBeanId = displayItemBean.getData().getEventCRFId();
            eventCrfBean = (EventCRFBean) eventCrfDao.findByPK(eventCrfBeanId);
            logger.info("found value here: " + displayItemBean.getData().getValue());
            logger.info("found status here: " + eventCrfBean.getStatus().getName());
            // System.out.println("found event crf bean name here: "
            // +
            // eventCrfBean.getEventName()+" id "+eventCrfBean.getId
            // ());
            // SO, items can be created in a wrapper which is set to
            // overwrite
            // we get around this by checking the bean first, to
            // make sure it's not null
            ItemDataBean itemDataBean = new ItemDataBean();
            itemDataBean =
                itemDataDao.findByItemIdAndEventCRFIdAndOrdinal(
                    displayItemBean.getItem().getId(),
                    eventCrfBean.getId(),
                    displayItemBean.getData().getOrdinal());
            if (wrapper.isOverwrite() && itemDataBean.getStatus() != null) {
              // ItemDataBean itemDataBean = new ItemDataBean();
              // itemDataBean =
              // itemDataDao.findByItemIdAndEventCRFIdAndOrdinal(
              // displayItemBean.getItem().getId(),
              // eventCrfBean.getId(), displayItemBean
              // .getData().getOrdinal());
              // itemDataBean =
              // itemDataDao.findByEventCRFIdAndItemName(
              // eventCrfBean,
              // displayItemBean.getItem().getName());
              logger.info(
                  "just tried to find item data bean on item name "
                      + displayItemBean.getItem().getName());
              itemDataBean.setUpdatedDate(new Date());
              itemDataBean.setUpdater(ub);
              itemDataBean.setValue(displayItemBean.getData().getValue());
              // set status?
              itemDataDao.update(itemDataBean);
              logger.info("updated: " + itemDataBean.getItemId());
              // need to set pk here in order to create dn
              displayItemBean.getData().setId(itemDataBean.getId());
            } else {
              itemDataDao.create(displayItemBean.getData());
              logger.info(
                  "created: "
                      + displayItemBean.getData().getItemId()
                      + "event CRF ID = "
                      + eventCrfBean.getId()
                      + "CRF VERSION ID ="
                      + eventCrfBean.getCRFVersionId());

              // does this dao function work for repeating
              // events/groups?
              // ItemDataBean itemDataBean =
              // itemDataDao.findByEventCRFIdAndItemName(
              // eventCrfBean,
              // displayItemBean.getItem().getName());
              ItemDataBean itemDataBean2 =
                  itemDataDao.findByItemIdAndEventCRFIdAndOrdinal(
                      displayItemBean.getItem().getId(),
                      eventCrfBean.getId(),
                      displayItemBean.getData().getOrdinal());
              logger.info(
                  "found: id " + itemDataBean2.getId() + " name " + itemDataBean2.getName());
              displayItemBean.getData().setId(itemDataBean2.getId());
            }
            // logger.info("created item data bean:
            // "+displayItemBean.getData().getId());
            // logger.info("created:
            // "+displayItemBean.getData().getName());
            // logger.info("continued:
            // "+displayItemBean.getData().getItemId());
            ItemDAO idao = new ItemDAO(sm.getDataSource());
            ItemBean ibean = (ItemBean) idao.findByPK(displayItemBean.getData().getItemId());
            // logger.info("continued2: getName " +
            // ibean.getName());
            // System.out.println("*** checking for validation errors: " + ibean.getName());
            String itemOid =
                displayItemBean.getItem().getOid()
                    + "_"
                    + wrapper.getStudyEventRepeatKey()
                    + "_"
                    + displayItemBean.getData().getOrdinal()
                    + "_"
                    + wrapper.getStudySubjectOid();
            if (wrapper.getValidationErrors().containsKey(itemOid)) {
              ArrayList messageList = (ArrayList) wrapper.getValidationErrors().get(itemOid);
              // if
              // (wrapper.getValidationErrors().containsKey(ibean
              // .getName())) {
              // ArrayList messageList = (ArrayList)
              // wrapper.getValidationErrors
              // ().get(ibean.getName());
              // could be more then one will have to iterate
              // could it be more than one? tbh 08/2008
              for (int iter = 0; iter < messageList.size(); iter++) {
                String message = (String) messageList.get(iter);
                DiscrepancyNoteBean parentDn =
                    ImportSpringJob.createDiscrepancyNote(
                        ibean,
                        message,
                        eventCrfBean,
                        displayItemBean,
                        null,
                        ub,
                        sm.getDataSource(),
                        currentStudy);
                ImportSpringJob.createDiscrepancyNote(
                    ibean,
                    message,
                    eventCrfBean,
                    displayItemBean,
                    parentDn.getId(),
                    ub,
                    sm.getDataSource(),
                    currentStudy);
                // System.out.println("*** created disc note with message: " + message);
                // displayItemBean);
              }
            }
            // logger.info("created:
            // "+displayItemBean.getDbData().getName());
            if (!eventCrfInts.contains(new Integer(eventCrfBean.getId()))) {
              crfBusinessLogicHelper.markCRFComplete(eventCrfBean, ub);
              // System.out.println("*** just updated event crf bean: " + eventCrfBean.getId());
              eventCrfInts.add(new Integer(eventCrfBean.getId()));
            }
          }
          // end of item datas, tbh
          // crfBusinessLogicHelper.markCRFComplete(eventCrfBean, ub);
          // System .out.println("*** just updated event crf bean: "+
          // eventCrfBean.getId());
          // need to update the study event status as well, tbh
          // crfBusinessLogicHelper.updateStudyEvent(eventCrfBean,
          // ub);
          // above should do it for us, tbh 08/2008
        }
      }

      addPageMessage(respage.getString("data_has_been_successfully_import"));
      // forwardPage(Page.SUBMIT_DATA_SERVLET);
      forwardPage(Page.LIST_STUDY_SUBJECTS_SERVLET);
      // replaced tbh, 06/2009
    }
  }
  @Override
  protected DisplayItemBean validateDisplayItemBean(
      DiscrepancyValidator v, DisplayItemBean dib, String inputName) {

    org.akaza.openclinica.bean.core.ResponseType rt =
        dib.getMetadata().getResponseSet().getResponseType();

    boolean isSingleItem = false;
    if (StringUtil.isBlank(inputName)) { // for single items
      inputName = getInputName(dib);
      isSingleItem = true;
    }
    // we only give warning to user if data entered in DDE is different from
    // IDE when the first
    // time user hits 'save'
    int keyId = ecb.getId();
    Integer validationCount = (Integer) session.getAttribute(COUNT_VALIDATE + keyId);

    ItemDataBean valueToCompare = dib.getData();
    if (!isSingleItem) {
      valueToCompare = dib.getDbData();
    }
    boolean showOriginalItem =
        getItemMetadataService()
            .isShown(dib.getItem().getId(), ecb, valueToCompare); // was dib.getData()
    boolean showItem = dib.getMetadata().isShowItem();
    boolean showDuplicateItem =
        getItemMetadataService()
            .hasPassedDDE(
                dib.getMetadata(),
                ecb,
                valueToCompare); // .isShown(dib.getItem().getId(), ecb, dib.getDbData());// where
    // is the set db data?
    logger.debug(
        "*** show original item has value "
            + dib.getData().getValue()
            + " and show item has value "
            + valueToCompare.getValue());
    logger.debug(
        "--- show original: "
            + showOriginalItem
            + " show duplicate: "
            + showDuplicateItem
            + " and just show item: "
            + showItem);
    logger.debug("VALIDATION COUNT " + validationCount);
    if (showOriginalItem && showDuplicateItem || showItem) {
      // it should either be shown already, OR shown in the database?
      // logger.debug("=== we passed, adding validation here");
      Integer indValidationCount =
          (Integer) session.getAttribute(COUNT_VALIDATE + keyId + dib.getMetadata().getId());
      if (rt.equals(org.akaza.openclinica.bean.core.ResponseType.TEXT)
          || rt.equals(org.akaza.openclinica.bean.core.ResponseType.TEXTAREA)
          || rt.equals(org.akaza.openclinica.bean.core.ResponseType.FILE)) {
        dib = validateDisplayItemBeanText(v, dib, inputName);
        // necessary?
        // if (indValidationCount == null || validationCount == null || validationCount.intValue()
        // == 0) {
        logger.debug("=== we passed, adding validation here TEXT " + valueToCompare.getId());
        v.addValidation(
            inputName, Validator.MATCHES_INITIAL_DATA_ENTRY_VALUE, valueToCompare, false);
        v.setErrorMessage(
            respage.getString("value_you_specified")
                + " "
                + valueToCompare.getValue()
                + " "
                + respage.getString("from_initial_data_entry"));
        // session.setAttribute(COUNT_VALIDATE + keyId + dib.getMetadata().getId(), new Integer(1));
        // }

      } else if (rt.equals(org.akaza.openclinica.bean.core.ResponseType.RADIO)
          || rt.equals(org.akaza.openclinica.bean.core.ResponseType.SELECT)) {
        dib = validateDisplayItemBeanSingleCV(v, dib, inputName);
        // ItemFormMetadataBean ifmdb = dib.getMetadata();
        // ResponseSetBean rsBean = ifmdb.getResponseSet();
        // logger.info("### found a response set count of "+inputName+"
        // "+rsBean.getOptions().size());
        // TODO sees it at this end tbh 1878
        // if (indValidationCount == null || validationCount == null || validationCount.intValue()
        // == 0) {
        logger.debug("=== we passed, adding validation here RADIO " + valueToCompare.getId());
        v.addValidation(
            inputName, Validator.MATCHES_INITIAL_DATA_ENTRY_VALUE, valueToCompare, false);
        String errorValue = valueToCompare.getValue();

        java.util.ArrayList options = dib.getMetadata().getResponseSet().getOptions();

        for (int u = 0; u < options.size(); u++) {
          ResponseOptionBean rob = (ResponseOptionBean) options.get(u);
          if (rob.getValue().equals(errorValue)) {
            errorValue = rob.getText();
          }
        }
        v.setErrorMessage(
            respage.getString("value_you_specified")
                + " "
                + errorValue
                + " "
                + respage.getString("from_initial_data_entry"));
        // session.setAttribute(COUNT_VALIDATE + keyId + dib.getMetadata().getId(), new Integer(1));
        // }
      } else if (rt.equals(org.akaza.openclinica.bean.core.ResponseType.CHECKBOX)
          || rt.equals(org.akaza.openclinica.bean.core.ResponseType.SELECTMULTI)) {
        dib = validateDisplayItemBeanMultipleCV(v, dib, inputName);
        // if (indValidationCount == null || validationCount == null || validationCount.intValue()
        // == 0) {
        logger.debug("=== we passed, adding validation here CHECKBOX " + valueToCompare.getId());
        v.addValidation(
            inputName, Validator.MATCHES_INITIAL_DATA_ENTRY_VALUE, valueToCompare, true);
        // repeated from above, tbh 112007
        String errorValue = valueToCompare.getValue();
        String errorTexts = "";

        java.util.ArrayList options = dib.getMetadata().getResponseSet().getOptions();

        for (int u = 0; u < options.size(); u++) {
          ResponseOptionBean rob = (ResponseOptionBean) options.get(u);
          if (errorValue.contains(rob.getValue())) {
            errorTexts = errorTexts + rob.getText();
            if (u < options.size() - 1) {
              // the values for multi-select are seperated by
              // comma
              errorTexts = errorTexts + ", ";
            }
          }
        }
        v.setErrorMessage(
            respage.getString("value_you_specified")
                + " "
                + errorTexts
                + " "
                + respage.getString("from_initial_data_entry"));
        // session.setAttribute(COUNT_VALIDATE + keyId + dib.getMetadata().getId(), new Integer(1));
        // }
      }
    }
    // only load form value when an item is not in a group,
    // if in group, the value is already loaded
    // see formGroups = loadFormValueForItemGroup(digb,digbs,formGroups);
    if (isSingleItem) {
      dib = loadFormValue(dib);
    }

    return dib;
  }