Examples with RuleSetServiceInterface org.akaza.openclinica.service.rule.RuleSetServiceInterface used on opensource projects

Example 1 with RuleSetServiceInterface

use of org.akaza.openclinica.service.rule.RuleSetServiceInterface in project OpenClinica by OpenClinica.

the class VerifyImportedCRFDataServlet method processRequest.

@Override
@SuppressWarnings(value = "unchecked")
public void processRequest() throws Exception {
    ItemDataDAO itemDataDao = new ItemDataDAO(sm.getDataSource());
    itemDataDao.setFormatDates(false);
    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)) {
        // setup ruleSets to run if applicable
        RuleSetServiceInterface ruleSetService = (RuleSetServiceInterface) SpringServletAccess.getApplicationContext(context).getBean("ruleSetService");
        List<ImportDataRuleRunnerContainer> containers = this.ruleRunSetup(sm.getDataSource(), currentStudy, ub, ruleSetService);
        List<DisplayItemBeanWrapper> displayItemBeanWrappers = (List<DisplayItemBeanWrapper>) session.getAttribute("importedData");
        // System.out.println("Size of displayItemBeanWrappers : " +
        // displayItemBeanWrappers.size());
        HashMap<Integer, String> importedCRFStatuses = (HashMap<Integer, String>) session.getAttribute("importedCRFStatuses");
        for (DisplayItemBeanWrapper wrapper : displayItemBeanWrappers) {
            boolean resetSDV = false;
            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>();
                // 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) {
                        if (!itemDataBean.getValue().equals(displayItemBean.getData().getValue()))
                            resetSDV = true;
                        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 {
                        resetSDV = true;
                        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);
                        // 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);
                        }
                    }
                    // "+displayItemBean.getDbData().getName());
                    if (!eventCrfInts.contains(new Integer(eventCrfBean.getId()))) {
                        String eventCRFStatus = importedCRFStatuses.get(new Integer(eventCrfBean.getId()));
                        if (eventCRFStatus != null && eventCRFStatus.equals(DataEntryStage.INITIAL_DATA_ENTRY.getName()) && eventCrfBean.getStatus().isAvailable()) {
                            crfBusinessLogicHelper.markCRFStarted(eventCrfBean, ub);
                        } else {
                            crfBusinessLogicHelper.markCRFComplete(eventCrfBean, ub);
                        }
                        eventCrfInts.add(new Integer(eventCrfBean.getId()));
                    }
                }
                // Reset the SDV status if item data has been changed or added
                if (eventCrfBean != null && resetSDV)
                    eventCrfDao.setSDVStatus(false, ub.getId(), 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"));
        addPageMessage(this.ruleActionWarnings(this.runRules(currentStudy, ub, containers, ruleSetService, ExecutionMode.SAVE)));
        // forwardPage(Page.SUBMIT_DATA_SERVLET);
        forwardPage(Page.LIST_STUDY_SUBJECTS_SERVLET);
    // replaced tbh, 06/2009
    }
}

Example 2 with RuleSetServiceInterface

use of org.akaza.openclinica.service.rule.RuleSetServiceInterface in project OpenClinica by OpenClinica.

the class ImportSpringJob method executeInternalInTransaction.

protected void executeInternalInTransaction(JobExecutionContext context) {
    locale = new Locale("en-US");
    ResourceBundleProvider.updateLocale(locale);
    respage = ResourceBundleProvider.getPageMessagesBundle();
    resword = ResourceBundleProvider.getWordsBundle();
    triggerService = new TriggerService();
    JobDataMap dataMap = context.getMergedJobDataMap();
    SimpleTrigger trigger = (SimpleTrigger) context.getTrigger();
    TriggerBean triggerBean = new TriggerBean();
    triggerBean.setFullName(trigger.getKey().getName());
    String contactEmail = dataMap.getString(EMAIL);
    logger.debug("=== starting to run trigger " + trigger.getKey().getName() + " ===");
    try {
        ApplicationContext appContext = (ApplicationContext) context.getScheduler().getContext().get("applicationContext");
        dataSource = (DataSource) appContext.getBean("dataSource");
        mailSender = (OpenClinicaMailSender) appContext.getBean("openClinicaMailSender");
        RuleSetServiceInterface ruleSetService = (RuleSetServiceInterface) appContext.getBean("ruleSetService");
        itemDataDao = new ItemDataDAO(dataSource);
        eventCrfDao = new EventCRFDAO(dataSource);
        auditEventDAO = new AuditEventDAO(dataSource);
        int userId = dataMap.getInt(USER_ID);
        UserAccountDAO userAccountDAO = new UserAccountDAO(dataSource);
        UserAccountBean ub = (UserAccountBean) userAccountDAO.findByPK(userId);
        triggerBean.setUserAccount(ub);
        String directory = dataMap.getString(DIRECTORY);
        String studyName = dataMap.getString(STUDY_NAME);
        String studyOid = dataMap.getString(STUDY_OID);
        String localeStr = dataMap.getString(ExampleSpringJob.LOCALE);
        if (localeStr != null) {
            locale = new Locale(localeStr);
            ResourceBundleProvider.updateLocale(locale);
            respage = ResourceBundleProvider.getPageMessagesBundle();
            resword = ResourceBundleProvider.getWordsBundle();
        }
        StudyDAO studyDAO = new StudyDAO(dataSource);
        StudyBean studyBean;
        if (studyOid != null) {
            studyBean = studyDAO.findByOid(studyOid);
        } else {
            studyBean = (StudyBean) studyDAO.findByName(studyName);
        }
        // might also need study id here for the data service?
        File fileDirectory = new File(SQLInitServlet.getField("filePath") + DIR_PATH + File.separator);
        // File fileDirectory = new File(IMPORT_DIR);
        if ("".equals(directory)) {
        // avoid NPEs
        // do nothing here?
        } else {
            // there is a separator at the end of IMPORT_DIR already...
            // fileDirectory = new File(IMPORT_DIR + directory +
            // File.separator);
            fileDirectory = new File(SQLInitServlet.getField("filePath") + DIR_PATH + File.separator + directory + File.separator);
        }
        if (!fileDirectory.isDirectory()) {
            fileDirectory.mkdirs();
        }
        // this is necessary the first time this is run, tbh
        // File destDirectory = new File(IMPORT_DIR_2);
        File destDirectory = new File(SQLInitServlet.getField("filePath") + DEST_DIR + File.separator);
        if (!destDirectory.isDirectory()) {
            destDirectory.mkdirs();
        }
        // look at directory, if there are new files, move them over and
        // read them
        // File fileDirectory = new File(directory);
        String[] files = fileDirectory.list();
        logger.debug("found " + files.length + " files under directory " + SQLInitServlet.getField("filePath") + DIR_PATH + File.separator + directory);
        File[] target = new File[files.length];
        File[] destination = new File[files.length];
        for (int i = 0; i < files.length; i++) {
            // hmm
            if (!new File(fileDirectory + File.separator + files[i]).isDirectory()) {
                File f = new File(fileDirectory + File.separator + files[i]);
                if (f == null || f.getName() == null) {
                    logger.debug("found a null file");
                } else if (f.getName().indexOf(".xml") < 0 && f.getName().indexOf(".XML") < 0) {
                    logger.debug("does not seem to be an xml file");
                // we need a place holder to avoid 'gaps' in the file
                // list
                } else {
                    logger.debug("adding: " + f.getName());
                    // new File(IMPORT_DIR +
                    target[i] = f;
                    // directory +
                    // File.separator + files[i]);
                    // destination[i] = new File(IMPORT_DIR_2 + files[i]);
                    destination[i] = new File(SQLInitServlet.getField("filePath") + DEST_DIR + File.separator + files[i]);
                }
            }
        }
        if (target.length > 0 && destination.length > 0) {
            cutAndPaste(target, destination);
            // @pgawade 28-June-2012: Fix for issue #13964 - Remove the null
            // elements from destination array of files
            // which might be created because of presense of sub-directories
            // or non-xml files under scheduled_data_import directory
            // which are non-usable files for import.
            destination = removeNullElements(destination);
            // do everything else here with 'destination'
            ArrayList<String> auditMessages = processData(destination, dataSource, respage, resword, ub, studyBean, destDirectory, triggerBean, ruleSetService);
            auditEventDAO.createRowForExtractDataJobSuccess(triggerBean, auditMessages.get(1));
            try {
                if (contactEmail != null && !"".equals(contactEmail)) {
                    mailSender.sendEmail(contactEmail, respage.getString("job_ran_for") + " " + triggerBean.getFullName(), generateMsg(auditMessages.get(0), contactEmail), true);
                    logger.debug("email body: " + auditMessages.get(1));
                }
            } catch (OpenClinicaSystemException e) {
                // Do nothing
                logger.error("=== throw an ocse === " + e.getMessage());
                e.printStackTrace();
            }
        } else {
            logger.debug("no real files found");
            auditEventDAO.createRowForExtractDataJobSuccess(triggerBean, respage.getString("job_ran_but_no_files"));
        // no email here, tbh
        }
    // use the business logic to go through each one and import that
    // data
    // check to see if they were imported before?
    // using the four methods:
    // importCRFDataServce.validateStudyMetadata,
    // service.lookupValidationErrors, service.fetchEventCRFBeans(?),
    // and
    // service.generateSummaryStatsBean(for the email we send out later)
    } catch (Exception e) {
        // more detailed reporting here
        logger.error("found a fail exception: " + e.getMessage());
        e.printStackTrace();
        auditEventDAO.createRowForExtractDataJobFailure(triggerBean, e.getMessage());
        try {
            mailSender.sendEmail(contactEmail, respage.getString("job_failure_for") + " " + triggerBean.getFullName(), e.getMessage(), true);
        } catch (OpenClinicaSystemException ose) {
            // Do nothing
            logger.error("=== throw an ocse: " + ose.getMessage());
        }
    }
}

Example 3 with RuleSetServiceInterface

use of org.akaza.openclinica.service.rule.RuleSetServiceInterface in project OpenClinica by OpenClinica.

the class DataEntryServlet method getRuleSetService.

private RuleSetServiceInterface getRuleSetService(HttpServletRequest request) {
    RuleSetServiceInterface ruleSetService = null;
    ruleSetService = ruleSetService != null ? ruleSetService : (RuleSetServiceInterface) SpringServletAccess.getApplicationContext(getServletContext()).getBean("ruleSetService");
    ruleSetService.setContextPath(getContextPath(request));
    ruleSetService.setMailSender((JavaMailSenderImpl) SpringServletAccess.getApplicationContext(getServletContext()).getBean("mailSender"));
    ruleSetService.setRequestURLMinusServletPath(getRequestURLMinusServletPath(request));
    return ruleSetService;
}

Example 4 with RuleSetServiceInterface

use of org.akaza.openclinica.service.rule.RuleSetServiceInterface in project OpenClinica by OpenClinica.

the class DataEntryServlet method getRuleSetServicePerRequest.

private RuleSetServiceInterface getRuleSetServicePerRequest(HttpServletRequest request) {
    //TODO:where is the ruleservice initialized? does not have any references. Check it
    RuleSetServiceInterface ruleSetService = null;
    ruleSetService = ruleSetService != null ? ruleSetService : (RuleSetServiceInterface) SpringServletAccess.getApplicationContext(getServletContext()).getBean("ruleSetServicePerRequest");
    ruleSetService.setContextPath(getContextPath(request));
    ruleSetService.setMailSender((JavaMailSenderImpl) SpringServletAccess.getApplicationContext(getServletContext()).getBean("mailSender"));
    ruleSetService.setRequestURLMinusServletPath(getRequestURLMinusServletPath(request));
    return ruleSetService;
}