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

Example 46 with EventCRFDAO

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

the class ImportCRFDataService method fetchEventCRFStatuses.

/*
     * purpose: Build a map of EventCRFs and the statuses they should have postimport. Assumes EventCRFs have been
     * created for "Not Started" forms.
     */
public void fetchEventCRFStatuses(ODMContainer odmContainer, HashMap<Integer, String> importedCRFStatuses) {
    EventCRFDAO eventCrfDAO = new EventCRFDAO(ds);
    StudySubjectDAO studySubjectDAO = new StudySubjectDAO(ds);
    StudyEventDefinitionDAO studyEventDefinitionDAO = new StudyEventDefinitionDAO(ds);
    StudyDAO studyDAO = new StudyDAO(ds);
    StudyEventDAO studyEventDAO = new StudyEventDAO(ds);
    String studyOID = odmContainer.getCrfDataPostImportContainer().getStudyOID();
    StudyBean studyBean = studyDAO.findByOid(studyOID);
    ArrayList<SubjectDataBean> subjectDataBeans = odmContainer.getCrfDataPostImportContainer().getSubjectData();
    for (SubjectDataBean subjectDataBean : subjectDataBeans) {
        ArrayList<StudyEventDataBean> studyEventDataBeans = subjectDataBean.getStudyEventData();
        StudySubjectBean studySubjectBean = studySubjectDAO.findByOidAndStudy(subjectDataBean.getSubjectOID(), studyBean.getId());
        for (StudyEventDataBean studyEventDataBean : studyEventDataBeans) {
            ArrayList<FormDataBean> formDataBeans = studyEventDataBean.getFormData();
            String sampleOrdinal = studyEventDataBean.getStudyEventRepeatKey() == null ? "1" : studyEventDataBean.getStudyEventRepeatKey();
            StudyEventDefinitionBean studyEventDefinitionBean = studyEventDefinitionDAO.findByOidAndStudy(studyEventDataBean.getStudyEventOID(), studyBean.getId(), studyBean.getParentStudyId());
            logger.info("find all by def and subject " + studyEventDefinitionBean.getName() + " study subject " + studySubjectBean.getName());
            StudyEventBean studyEventBean = (StudyEventBean) studyEventDAO.findByStudySubjectIdAndDefinitionIdAndOrdinal(studySubjectBean.getId(), studyEventDefinitionBean.getId(), Integer.parseInt(sampleOrdinal));
            for (FormDataBean formDataBean : formDataBeans) {
                CRFVersionDAO crfVersionDAO = new CRFVersionDAO(ds);
                ArrayList<CRFVersionBean> crfVersionBeans = crfVersionDAO.findAllByOid(formDataBean.getFormOID());
                for (CRFVersionBean crfVersionBean : crfVersionBeans) {
                    ArrayList<EventCRFBean> eventCrfBeans = eventCrfDAO.findByEventSubjectVersion(studyEventBean, studySubjectBean, crfVersionBean);
                    for (EventCRFBean ecb : eventCrfBeans) {
                        Integer ecbId = new Integer(ecb.getId());
                        if (!importedCRFStatuses.keySet().contains(ecbId) && formDataBean.getEventCRFStatus() != null) {
                            importedCRFStatuses.put(ecb.getId(), formDataBean.getEventCRFStatus());
                        }
                    }
                }
            }
        }
    }
}

Example 47 with EventCRFDAO

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

the class CrfBusinessLogicHelper method markCRFComplete.

/**
     * The following methods are for 'mark CRF complete' Note that we will also wrap Study Event status changes in this
     * code, possibly split out in a later release, tbh 06/2008
     * 
     * @return
     */
public boolean markCRFComplete(EventCRFBean ecb, UserAccountBean ub, boolean inTransaction) throws Exception {
    DataEntryStage stage = ecb.getStage();
    EventCRFDAO eventCrfDao = new EventCRFDAO(ds);
    ItemDataDAO itemDataDao = new ItemDataDAO(ds);
    StudyDAO sdao = new StudyDAO(ds);
    StudySubjectDAO ssdao = new StudySubjectDAO(ds);
    StudyBean study = sdao.findByStudySubjectId(ecb.getStudySubjectId());
    EventDefinitionCRFBean edcb = getEventDefinitionCrfByStudyEventAndCrfVersion(ecb, study);
    // StudyEventDAO studyEventDao = new StudyEventDAO(ds);
    // StudyEventBean studyEventBean = (StudyEventBean)
    // studyEventDao.findByPK(ecb.getStudyEventId());
    // Status studyEventStatus = studyEventBean.getStatus();
    StudyEventDefinitionDAO studyEventDefinitionDao = new StudyEventDefinitionDAO(ds);
    StudyEventDefinitionBean sedBean = (StudyEventDefinitionBean) studyEventDefinitionDao.findByPK(edcb.getStudyEventDefinitionId());
    CRFDAO crfDao = new CRFDAO(ds);
    ArrayList crfs = (ArrayList) crfDao.findAllActiveByDefinition(sedBean);
    sedBean.setCrfs(crfs);
    // request.setAttribute(TableOfContentsServlet.INPUT_EVENT_CRF_BEAN,
    // ecb);
    // request.setAttribute(INPUT_EVENT_CRF_ID, new
    // Integer(ecb.getId()));
    logger.debug("inout_event_crf_id:" + ecb.getId());
    logger.debug("inout_study_event_def_id:" + sedBean.getId());
    Status newStatus = ecb.getStatus();
    DataEntryStage newStage = ecb.getStage();
    boolean ide = true;
    newStatus = Status.UNAVAILABLE;
    // ecb.setUpdaterId(ub.getId());
    ecb.setUpdater(ub);
    ecb.setUpdatedDate(new Date());
    ecb.setDateCompleted(new Date());
    ecb.setDateValidateCompleted(new Date());
    /*
         * //for the non-reviewed sections, no item data in DB yet, need to //create them if
         * (!isEachSectionReviewedOnce()) { boolean canSave = saveItemsToMarkComplete(newStatus); if (canSave == false){
         * addPageMessage("You may not mark this Event CRF complete, because there are some required entries which have
         * not been filled out."); return false; } }
         */
    ecb.setStatus(newStatus);
    ecb.setStage(newStage);
    ecb = (EventCRFBean) eventCrfDao.update(ecb);
    logger.debug("just updated event crf id: " + ecb.getId());
    // note the below statement only updates the DATES, not the STATUS
    eventCrfDao.markComplete(ecb, ide);
    // update all the items' status to complete
    itemDataDao.updateStatusByEventCRF(ecb, newStatus);
    // change status for study event
    StudyEventDAO sedao = new StudyEventDAO(ds);
    StudyEventBean seb = (StudyEventBean) sedao.findByPK(ecb.getStudyEventId());
    seb.setUpdatedDate(new Date());
    seb.setUpdater(ub);
    // updates with Pauls observation from bug:2488:
    // 1. If there is only one CRF in the event (whether the CRF was
    // required or not), and data was imported for it, the status of the
    // event should be Completed.
    //
    logger.debug("sed bean get crfs get size: " + sedBean.getCrfs().size());
    logger.debug("edcb get crf id: " + edcb.getCrfId() + " version size? " + edcb.getVersions().size());
    logger.debug("ecb get crf id: " + ecb.getCrf().getId());
    logger.debug("ecb get crf version id: " + ecb.getCRFVersionId());
    if (sedBean.getCrfs().size() == 1) {
        // && edcb.getCrfId() ==
        // ecb.getCrf().getId()) {
        seb.setSubjectEventStatus(SubjectEventStatus.COMPLETED);
        logger.info("just set subj event status to -- COMPLETED --");
    } else // removing sedBean.getCrfs().size() > 1 &&
    if (areAllRequired(seb, study) && !areAllCompleted(seb, study)) {
        seb.setSubjectEventStatus(SubjectEventStatus.DATA_ENTRY_STARTED);
        logger.info("just set subj event status to -- DATAENTRYSTARTED --");
    } else // removing sedBean.getCrfs().size() > 1 &&
    if (!areAllRequired(seb, study)) {
        if (areAllRequiredCompleted(seb, study)) {
            seb.setSubjectEventStatus(SubjectEventStatus.COMPLETED);
            logger.info("just set subj event status to -- 3completed3 --");
        } else {
            seb.setSubjectEventStatus(SubjectEventStatus.DATA_ENTRY_STARTED);
            logger.info("just set subj event status to -- DATAENTRYSTARTED --");
        }
    } else if (noneAreRequired(seb, study)) {
        seb.setSubjectEventStatus(SubjectEventStatus.COMPLETED);
        logger.info("just set subj event status to -- 5completed5 --");
    }
    logger.debug("just set subj event status, final status is " + seb.getSubjectEventStatus().getName());
    logger.debug("final overall status is " + seb.getStatus().getName());
    seb = (StudyEventBean) sedao.update(seb, inTransaction);
    return true;
}

Example 48 with EventCRFDAO

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

the class CrfBusinessLogicHelper method markCRFStarted.

/**
     * The following methods are for 'mark CRF Started' Note that we will also wrap Study Event status changes in this
     * code, possibly split out in a later release, tbh 06/2008
     * 
     * @return
     */
public boolean markCRFStarted(EventCRFBean ecb, UserAccountBean ub, boolean inTransaction) throws Exception {
    EventCRFDAO eventCrfDao = new EventCRFDAO(ds);
    StudyDAO sdao = new StudyDAO(ds);
    StudyBean study = sdao.findByStudySubjectId(ecb.getStudySubjectId());
    EventDefinitionCRFBean edcb = getEventDefinitionCrfByStudyEventAndCrfVersion(ecb, study);
    StudyEventDefinitionDAO studyEventDefinitionDao = new StudyEventDefinitionDAO(ds);
    StudyEventDefinitionBean sedBean = (StudyEventDefinitionBean) studyEventDefinitionDao.findByPK(edcb.getStudyEventDefinitionId());
    CRFDAO crfDao = new CRFDAO(ds);
    ArrayList crfs = (ArrayList) crfDao.findAllActiveByDefinition(sedBean);
    sedBean.setCrfs(crfs);
    logger.debug("inout_event_crf_id:" + ecb.getId());
    logger.debug("inout_study_event_def_id:" + sedBean.getId());
    Status newStatus = Status.AVAILABLE;
    DataEntryStage newStage = ecb.getStage();
    ecb.setUpdater(ub);
    ecb.setUpdatedDate(new Date());
    ecb.setStatus(newStatus);
    ecb.setStage(newStage);
    ecb = (EventCRFBean) eventCrfDao.update(ecb);
    logger.debug("just updated event crf id: " + ecb.getId());
    StudyEventDAO sedao = new StudyEventDAO(ds);
    StudyEventBean seb = (StudyEventBean) sedao.findByPK(ecb.getStudyEventId());
    if (seb.getSubjectEventStatus().isScheduled() || seb.getSubjectEventStatus().isNotScheduled() || seb.getSubjectEventStatus().isDE_Started()) {
        // change status for study event
        seb.setUpdatedDate(new Date());
        seb.setUpdater(ub);
        seb.setSubjectEventStatus(SubjectEventStatus.DATA_ENTRY_STARTED);
        seb = (StudyEventBean) sedao.update(seb, inTransaction);
    }
    return true;
}

Example 49 with EventCRFDAO

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

the class CrfBusinessLogicHelper method areAllCompleted.

protected boolean areAllCompleted(StudyEventBean seBean, StudyBean study) {
    EventDefinitionCRFDAO edcDao = new EventDefinitionCRFDAO(ds);
    EventCRFDAO eventCrfDao = new EventCRFDAO(ds);
    ArrayList allCRFs = eventCrfDao.findAllByStudyEvent(seBean);
    ArrayList allEDCs = (ArrayList) edcDao.findAllActiveByEventDefinitionId(study, seBean.getStudyEventDefinitionId());
    boolean eventCompleted = true;
    logger.info("found all crfs: " + allCRFs.size());
    logger.info("found all edcs: " + allEDCs.size());
    for (int i = 0; i < allCRFs.size(); i++) {
        EventCRFBean ec = (EventCRFBean) allCRFs.get(i);
        // logger.info("found a crf name from event crf bean: " +
        // ec.getCrf().getName());
        logger.info("found a event name from event crf bean: " + ec.getEventName() + " crf version id: " + ec.getCRFVersionId());
        if (!ec.getStatus().equals(Status.UNAVAILABLE) || allCRFs.size() < allEDCs.size()) {
            eventCompleted = false;
            break;
        }
    }
    logger.info("returning for are all completed: " + eventCompleted);
    return eventCompleted;
}

Example 50 with EventCRFDAO

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

the class DiscrepancyNoteUtil method injectParentDiscNotesIntoDisplayStudyEvents.

public void injectParentDiscNotesIntoDisplayStudyEvents(List<DisplayStudyEventBean> displayStudyBeans, Set<Integer> resolutionStatusIds, DataSource dataSource, int discNoteType) {
    if (displayStudyBeans == null) {
        return;
    }
    // booleans representing whether this method should only get
    // DiscrepancyNoteBeans with
    // certain resolution status or discrepancyNoteTypeId number.
    boolean hasResolutionStatus = this.checkResolutionStatus(resolutionStatusIds);
    boolean hasDiscNoteType = discNoteType >= 1 && discNoteType <= 4;
    EventCRFDAO eventCRFDAO = new EventCRFDAO(dataSource);
    DiscrepancyNoteDAO discrepancyNoteDAO = new DiscrepancyNoteDAO(dataSource);
    StudyEventBean studyEventBean;
    List<EventCRFBean> eventCRFBeans = new ArrayList<EventCRFBean>();
    List<DiscrepancyNoteBean> foundDiscNotes = new ArrayList<DiscrepancyNoteBean>();
    for (DisplayStudyEventBean dStudyEventBean : displayStudyBeans) {
        studyEventBean = dStudyEventBean.getStudyEvent();
        // All EventCRFs for a study event
        eventCRFBeans = eventCRFDAO.findAllByStudyEvent(studyEventBean);
        for (EventCRFBean eventCrfBean : eventCRFBeans) {
            // Find ItemData type notes associated with an event crf
            foundDiscNotes = discrepancyNoteDAO.findParentItemDataDNotesFromEventCRF(eventCrfBean);
            // filter for any specified disc note type
            if (!foundDiscNotes.isEmpty() && hasDiscNoteType) {
                // only include disc notes that have the specified disc note
                // type id
                foundDiscNotes = filterforDiscNoteType(foundDiscNotes, discNoteType);
            }
            if (!foundDiscNotes.isEmpty()) {
                if (!hasResolutionStatus) {
                    studyEventBean.getDiscBeanList().addAll(foundDiscNotes);
                } else {
                    // session variable
                    for (DiscrepancyNoteBean discBean : foundDiscNotes) {
                        for (int statusId : resolutionStatusIds) {
                            if (discBean.getResolutionStatusId() == statusId) {
                                studyEventBean.getDiscBeanList().add(discBean);
                            }
                        }
                    }
                }
            }
        }
    // end for(EventCRFBean...
    }
// end for (DisplayStudyEventBean
}