Examples with StudyConfigService org.akaza.openclinica.dao.service.StudyConfigService used on opensource projects

Example 6 with StudyConfigService

use of org.akaza.openclinica.dao.service.StudyConfigService in project OpenClinica by OpenClinica.

the class InitUpdateStudyServlet method processRequest.

/**
     * Processes the request
     */
@Override
public void processRequest() throws Exception {
    StudyDAO sdao = new StudyDAO(sm.getDataSource());
    String idString = request.getParameter("id");
    logger.info("study id:" + idString);
    if (StringUtil.isBlank(idString)) {
        addPageMessage(respage.getString("please_choose_a_study_to_edit"));
        forwardPage(Page.STUDY_LIST_SERVLET);
    } else {
        int studyId = Integer.valueOf(idString.trim()).intValue();
        StudyBean study = (StudyBean) sdao.findByPK(studyId);
        StudyConfigService scs = new StudyConfigService(sm.getDataSource());
        study = scs.setParametersForStudy(study);
        logger.info("date created:" + study.getCreatedDate());
        logger.info("protocol Type:" + study.getProtocolType());
        session.setAttribute("newStudy", study);
        request.setAttribute("facRecruitStatusMap", CreateStudyServlet.facRecruitStatusMap);
        request.setAttribute("statuses", Status.toActiveArrayList());
        resetPanel();
        panel.setStudyInfoShown(false);
        panel.setOrderedData(true);
        panel.setExtractData(false);
        panel.setSubmitDataModule(false);
        panel.setCreateDataset(false);
        panel.setIconInfoShown(true);
        panel.setManageSubject(false);
        forwardPage(Page.UPDATE_STUDY1);
    }
}

Example 7 with StudyConfigService

use of org.akaza.openclinica.dao.service.StudyConfigService in project OpenClinica by OpenClinica.

the class SetUpStudyRole method setUp.

public void setUp(HttpSession httpSession, UserAccountBean userAccountBean) {
    StudyUserRoleBean currentRole = new StudyUserRoleBean();
    StudyBean currentStudy = new StudyBean();
    StudyInfoPanel panel = new StudyInfoPanel();
    StudyDAO sdao = new StudyDAO(dataSource);
    if (userAccountBean.getId() > 0 && userAccountBean.getActiveStudyId() > 0) {
        StudyParameterValueDAO spvdao = new StudyParameterValueDAO(dataSource);
        currentStudy = (StudyBean) sdao.findByPK(userAccountBean.getActiveStudyId());
        ArrayList studyParameters = spvdao.findParamConfigByStudy(currentStudy);
        currentStudy.setStudyParameters(studyParameters);
        StudyConfigService scs = new StudyConfigService(dataSource);
        if (currentStudy.getParentStudyId() <= 0) {
            // top study
            scs.setParametersForStudy(currentStudy);
        } else {
            // YW <<
            currentStudy.setParentStudyName(((StudyBean) sdao.findByPK(currentStudy.getParentStudyId())).getName());
            // YW >>
            scs.setParametersForSite(currentStudy);
        }
        // set up the panel here, tbh
        panel.reset();
        /*
            * panel.setData("Study", currentStudy.getName());
            * panel.setData("Summary", currentStudy.getSummary());
            * panel.setData("Start Date",
            * sdf.format(currentStudy.getDatePlannedStart()));
            * panel.setData("End Date",
            * sdf.format(currentStudy.getDatePlannedEnd()));
            * panel.setData("Principal Investigator",
            * currentStudy.getPrincipalInvestigator());
            */
        httpSession.setAttribute(STUDY_INFO_PANEL, panel);
    } else {
        currentStudy = new StudyBean();
    }
    httpSession.setAttribute("study", currentStudy);
    // restored
    if (currentStudy.getParentStudyId() > 0) {
        currentStudy.setParentStudyName(((StudyBean) sdao.findByPK(currentStudy.getParentStudyId())).getName());
    }
    if (currentStudy.getParentStudyId() > 0) {
        /*The Role decription will be set depending on whether the user logged in at
       study lever or site level. issue-2422*/
        List roles = Role.toArrayList();
        for (Iterator it = roles.iterator(); it.hasNext(); ) {
            Role role = (Role) it.next();
            switch(role.getId()) {
                case 2:
                    role.setDescription("site_Study_Coordinator");
                    break;
                case 3:
                    role.setDescription("site_Study_Director");
                    break;
                case 4:
                    role.setDescription("site_investigator");
                    break;
                case 5:
                    role.setDescription("site_Data_Entry_Person");
                    break;
                case 6:
                    role.setDescription("site_monitor");
                    break;
                case 7:
                    role.setDescription("site_Data_Entry_Person2");
                    break;
                default:
            }
        }
    } else {
        /*If the current study is a site, we will change the role description. issue-2422*/
        List roles = Role.toArrayList();
        for (Iterator it = roles.iterator(); it.hasNext(); ) {
            Role role = (Role) it.next();
            switch(role.getId()) {
                case 2:
                    role.setDescription("Study_Coordinator");
                    break;
                case 3:
                    role.setDescription("Study_Director");
                    break;
                case 4:
                    role.setDescription("investigator");
                    break;
                case 5:
                    role.setDescription("Data_Entry_Person");
                    break;
                case 6:
                    role.setDescription("monitor");
                    break;
                default:
            }
        }
    }
    if (currentRole.getId() <= 0) {
        // kept as "invalid" -- YW 06-21-2007
        if (userAccountBean.getId() > 0 && currentStudy.getId() > 0 && !currentStudy.getStatus().getName().equals("removed")) {
            currentRole = userAccountBean.getRoleByStudy(currentStudy.getId());
            if (currentStudy.getParentStudyId() > 0) {
                // Checking if currentStudy has been removed or not will
                // ge good enough -- YW 10-17-2007
                StudyUserRoleBean roleInParent = userAccountBean.getRoleByStudy(currentStudy.getParentStudyId());
                // inherited role from parent study, pick the higher
                // role
                currentRole.setRole(Role.max(currentRole.getRole(), roleInParent.getRole()));
            }
        // logger.info("currentRole:" + currentRole.getRoleName());
        } else {
            currentRole = new StudyUserRoleBean();
        }
        httpSession.setAttribute("userRole", currentRole);
    } else // active study has been removed.
    if (currentRole.getId() > 0 && (currentStudy.getStatus().equals(Status.DELETED) || currentStudy.getStatus().equals(Status.AUTO_DELETED))) {
        currentRole.setRole(Role.INVALID);
        currentRole.setStatus(Status.DELETED);
        httpSession.setAttribute("userRole", currentRole);
    }
}

Example 8 with StudyConfigService

use of org.akaza.openclinica.dao.service.StudyConfigService in project OpenClinica by OpenClinica.

the class ChangeStudyServlet method changeStudy.

private void changeStudy() throws Exception {
    Validator v = new Validator(request);
    FormProcessor fp = new FormProcessor(request);
    int studyId = fp.getInt("studyId");
    int prevStudyId = currentStudy.getId();
    StudyDAO sdao = new StudyDAO(sm.getDataSource());
    StudyBean current = (StudyBean) sdao.findByPK(studyId);
    // reset study parameters -jxu 02/09/2007
    StudyParameterValueDAO spvdao = new StudyParameterValueDAO(sm.getDataSource());
    ArrayList studyParameters = spvdao.findParamConfigByStudy(current);
    current.setStudyParameters(studyParameters);
    int parentStudyId = currentStudy.getParentStudyId() > 0 ? currentStudy.getParentStudyId() : currentStudy.getId();
    StudyParameterValueBean parentSPV = spvdao.findByHandleAndStudy(parentStudyId, "subjectIdGeneration");
    current.getStudyParameterConfig().setSubjectIdGeneration(parentSPV.getValue());
    String idSetting = current.getStudyParameterConfig().getSubjectIdGeneration();
    if (idSetting.equals("auto editable") || idSetting.equals("auto non-editable")) {
        int nextLabel = this.getStudySubjectDAO().findTheGreatestLabel() + 1;
        request.setAttribute("label", new Integer(nextLabel).toString());
    }
    StudyConfigService scs = new StudyConfigService(sm.getDataSource());
    if (current.getParentStudyId() <= 0) {
        // top study
        scs.setParametersForStudy(current);
    } else {
        // YW <<
        if (current.getParentStudyId() > 0) {
            current.setParentStudyName(((StudyBean) sdao.findByPK(current.getParentStudyId())).getName());
        }
        // YW 06-12-2007>>
        scs.setParametersForSite(current);
    }
    if (current.getStatus().equals(Status.DELETED) || current.getStatus().equals(Status.AUTO_DELETED)) {
        session.removeAttribute("studyWithRole");
        addPageMessage(restext.getString("study_choosed_removed_restore_first"));
    } else {
        session.setAttribute("study", current);
        currentStudy = current;
        // change user's active study id
        UserAccountDAO udao = new UserAccountDAO(sm.getDataSource());
        ub.setActiveStudyId(current.getId());
        ub.setUpdater(ub);
        ub.setUpdatedDate(new java.util.Date());
        udao.update(ub);
        if (current.getParentStudyId() > 0) {
            /*
                 * The Role decription will be set depending on whether the user
                 * logged in at study lever or site level. issue-2422
                 */
            List roles = Role.toArrayList();
            for (Iterator it = roles.iterator(); it.hasNext(); ) {
                Role role = (Role) it.next();
                switch(role.getId()) {
                    case 2:
                        role.setDescription("site_Study_Coordinator");
                        break;
                    case 3:
                        role.setDescription("site_Study_Director");
                        break;
                    case 4:
                        role.setDescription("site_investigator");
                        break;
                    case 5:
                        role.setDescription("site_Data_Entry_Person");
                        break;
                    case 6:
                        role.setDescription("site_monitor");
                        break;
                    case 7:
                        role.setDescription("site_Data_Entry_Person2");
                        break;
                    default:
                }
            }
        } else {
            /*
                 * If the current study is a site, we will change the role
                 * description. issue-2422
                 */
            List roles = Role.toArrayList();
            for (Iterator it = roles.iterator(); it.hasNext(); ) {
                Role role = (Role) it.next();
                switch(role.getId()) {
                    case 2:
                        role.setDescription("Study_Coordinator");
                        break;
                    case 3:
                        role.setDescription("Study_Director");
                        break;
                    case 4:
                        role.setDescription("investigator");
                        break;
                    case 5:
                        role.setDescription("Data_Entry_Person");
                        break;
                    case 6:
                        role.setDescription("monitor");
                        break;
                    default:
                }
            }
        }
        currentRole = (StudyUserRoleBean) session.getAttribute("studyWithRole");
        session.setAttribute("userRole", currentRole);
        session.removeAttribute("studyWithRole");
        addPageMessage(restext.getString("current_study_changed_succesfully"));
    }
    ub.incNumVisitsToMainMenu();
    // YW 2-18-2008, if study has been really changed <<
    if (prevStudyId != studyId) {
        session.removeAttribute("eventsForCreateDataset");
        session.setAttribute("tableFacadeRestore", "false");
    }
    request.setAttribute("studyJustChanged", "yes");
    // YW >>
    //Integer assignedDiscrepancies = getDiscrepancyNoteDAO().countAllItemDataByStudyAndUser(currentStudy, ub);
    Integer assignedDiscrepancies = getDiscrepancyNoteDAO().getViewNotesCountWithFilter(" AND dn.assigned_user_id =" + ub.getId() + " AND (dn.resolution_status_id=1 OR dn.resolution_status_id=2 OR dn.resolution_status_id=3)", currentStudy);
    request.setAttribute("assignedDiscrepancies", assignedDiscrepancies == null ? 0 : assignedDiscrepancies);
    if (currentRole.isInvestigator() || currentRole.isResearchAssistant() || currentRole.isResearchAssistant2()) {
        setupListStudySubjectTable();
    }
    if (currentRole.isMonitor()) {
        setupSubjectSDVTable();
    } else if (currentRole.isCoordinator() || currentRole.isDirector()) {
        if (currentStudy.getStatus().isPending()) {
            response.sendRedirect(request.getContextPath() + Page.MANAGE_STUDY_MODULE.getFileName());
            return;
        }
        setupStudySiteStatisticsTable();
        setupSubjectEventStatusStatisticsTable();
        setupStudySubjectStatusStatisticsTable();
        if (currentStudy.getParentStudyId() == 0) {
            setupStudyStatisticsTable();
        }
    }
    forwardPage(Page.MENU);
}

Example 9 with StudyConfigService

use of org.akaza.openclinica.dao.service.StudyConfigService in project OpenClinica by OpenClinica.

the class CoreSecureController method process.

private void process(HttpServletRequest request, HttpServletResponse response) throws OpenClinicaException, UnsupportedEncodingException {
    request.setCharacterEncoding("UTF-8");
    response.setHeader("Content-Encoding", "gzip");
    HttpSession session = request.getSession();
    // BWP >> 1/8/2008
    try {
        // YW 10-03-2007 <<
        session.setMaxInactiveInterval(Integer.parseInt(SQLInitServlet.getField("max_inactive_interval")));
    // YW >>
    } catch (NumberFormatException nfe) {
        // BWP>>3600 is the datainfo.properties maxInactiveInterval on
        // 1/8/2008
        session.setMaxInactiveInterval(3600);
    }
    // If the session already has a value with key SUPPORT_URL don't reset
    if (session.getAttribute(SUPPORT_URL) == null) {
        session.setAttribute(SUPPORT_URL, SQLInitServlet.getSupportURL());
    }
    UserAccountBean ub = (UserAccountBean) session.getAttribute(USER_BEAN_NAME);
    StudyBean currentStudy = (StudyBean) session.getAttribute("study");
    StudyUserRoleBean currentRole = (StudyUserRoleBean) session.getAttribute("userRole");
    // Set current language preferences
    Locale locale = LocaleResolver.getLocale(request);
    ResourceBundleProvider.updateLocale(locale);
    resadmin = ResourceBundleProvider.getAdminBundle(locale);
    resaudit = ResourceBundleProvider.getAuditEventsBundle(locale);
    resexception = ResourceBundleProvider.getExceptionsBundle(locale);
    resformat = ResourceBundleProvider.getFormatBundle(locale);
    restext = ResourceBundleProvider.getTextsBundle(locale);
    resterm = ResourceBundleProvider.getTermsBundle(locale);
    resword = ResourceBundleProvider.getWordsBundle(locale);
    respage = ResourceBundleProvider.getPageMessagesBundle(locale);
    resworkflow = ResourceBundleProvider.getWorkflowBundle(locale);
    try {
        String userName = request.getRemoteUser();
        ServletContext context = getServletContext();
        // BWP 1/8/08<< the sm variable may already be set with a mock
        // object,
        // from the perspective of
        // JUnit servlets tests
        /*
             * if(sm==null && (!StringUtil.isBlank(userName))) {//check if user
             * logged in, then create a new sessionmanger to get ub //create a
             * new sm in order to get a new ub object sm = new
             * SessionManager(ub, userName); }
             */
        // BWP 01/08 >>
        // sm = new SessionManager(ub, userName);
        SessionManager sm = new SessionManager(ub, userName, SpringServletAccess.getApplicationContext(context));
        ub = sm.getUserBean();
        request.getSession().setAttribute("sm", sm);
        session.setAttribute("userBean", ub);
        StudyDAO sdao = new StudyDAO(getDataSource());
        if (currentStudy == null || currentStudy.getId() <= 0) {
            if (ub.getId() > 0 && ub.getActiveStudyId() > 0) {
                StudyParameterValueDAO spvdao = new StudyParameterValueDAO(getDataSource());
                currentStudy = (StudyBean) sdao.findByPK(ub.getActiveStudyId());
                ArrayList studyParameters = spvdao.findParamConfigByStudy(currentStudy);
                currentStudy.setStudyParameters(studyParameters);
                StudyConfigService scs = new StudyConfigService(getDataSource());
                if (currentStudy.getParentStudyId() <= 0) {
                    // top study
                    scs.setParametersForStudy(currentStudy);
                } else {
                    // YW <<
                    currentStudy.setParentStudyName(((StudyBean) sdao.findByPK(currentStudy.getParentStudyId())).getName());
                    // YW >>
                    scs.setParametersForSite(currentStudy);
                }
                // set up the panel here, tbh
                panel.reset();
                /*
                     * panel.setData("Study", currentStudy.getName());
                     * panel.setData("Summary", currentStudy.getSummary());
                     * panel.setData("Start Date",
                     * sdf.format(currentStudy.getDatePlannedStart()));
                     * panel.setData("End Date",
                     * sdf.format(currentStudy.getDatePlannedEnd()));
                     * panel.setData("Principal Investigator",
                     * currentStudy.getPrincipalInvestigator());
                     */
                session.setAttribute(STUDY_INFO_PANEL, panel);
            } else {
                currentStudy = new StudyBean();
            }
            // The above line is moved here since currentstudy's value is set in else block and could change
            session.setAttribute("study", currentStudy);
        } else if (currentStudy.getId() > 0) {
            // restored
            if (currentStudy.getParentStudyId() > 0) {
                currentStudy.setParentStudyName(((StudyBean) sdao.findByPK(currentStudy.getParentStudyId())).getName());
            }
        // YW >>
        }
        if (currentStudy.getParentStudyId() > 0) {
            /*
                 * The Role decription will be set depending on whether the user
                 * logged in at study lever or site level. issue-2422
                 */
            List roles = Role.toArrayList();
            for (Iterator it = roles.iterator(); it.hasNext(); ) {
                Role role = (Role) it.next();
                switch(role.getId()) {
                    case 2:
                        role.setDescription("site_Study_Coordinator");
                        break;
                    case 3:
                        role.setDescription("site_Study_Director");
                        break;
                    case 4:
                        role.setDescription("site_investigator");
                        break;
                    case 5:
                        role.setDescription("site_Data_Entry_Person");
                        break;
                    case 6:
                        role.setDescription("site_monitor");
                        break;
                    case 7:
                        role.setDescription("site_Data_Entry_Person2");
                        break;
                    default:
                }
            }
        } else {
            /*
                 * If the current study is a site, we will change the role
                 * description. issue-2422
                 */
            List roles = Role.toArrayList();
            for (Iterator it = roles.iterator(); it.hasNext(); ) {
                Role role = (Role) it.next();
                switch(role.getId()) {
                    case 2:
                        role.setDescription("Study_Coordinator");
                        break;
                    case 3:
                        role.setDescription("Study_Director");
                        break;
                    case 4:
                        role.setDescription("Investigator");
                        break;
                    case 5:
                        role.setDescription("Data_Entry_Person");
                        break;
                    case 6:
                        role.setDescription("Monitor");
                        break;
                    default:
                }
            }
        }
        if (currentRole == null || currentRole.getId() <= 0) {
            // kept as "invalid" -- YW 06-21-2007
            if (ub.getId() > 0 && currentStudy.getId() > 0 && !currentStudy.getStatus().getName().equals("removed")) {
                currentRole = ub.getRoleByStudy(currentStudy.getId());
                if (currentStudy.getParentStudyId() > 0) {
                    // Checking if currentStudy has been removed or not will
                    // ge good enough -- YW 10-17-2007
                    StudyUserRoleBean roleInParent = ub.getRoleByStudy(currentStudy.getParentStudyId());
                    // inherited role from parent study, pick the higher
                    // role
                    currentRole.setRole(Role.max(currentRole.getRole(), roleInParent.getRole()));
                }
            // logger.info("currentRole:" + currentRole.getRoleName());
            } else {
                currentRole = new StudyUserRoleBean();
            }
            session.setAttribute("userRole", currentRole);
        } else // active study has been removed.
        if (currentRole.getId() > 0 && (currentStudy.getStatus().equals(Status.DELETED) || currentStudy.getStatus().equals(Status.AUTO_DELETED))) {
            currentRole.setRole(Role.INVALID);
            currentRole.setStatus(Status.DELETED);
            session.setAttribute("userRole", currentRole);
        }
        // YW 06-19-2007 >>
        request.setAttribute("isAdminServlet", getAdminServlet());
        // logger.info(rq_names);
        if (!request.getRequestURI().endsWith("ResetPassword")) {
            passwdTimeOut(request, response, ub);
        }
        mayProceed(request, response);
        //   pingJobServer(request);
        processRequest(request, response);
    } catch (InconsistentStateException ise) {
        ise.printStackTrace();
        LOGGER.warn("InconsistentStateException: org.akaza.openclinica.control.CoreSecureController: ", ise);
        unlockCRFOnError(request);
        addPageMessage(ise.getOpenClinicaMessage(), request);
        forwardPage(ise.getGoTo(), request, response);
    } catch (InsufficientPermissionException ipe) {
        ipe.printStackTrace();
        LOGGER.warn("InsufficientPermissionException: org.akaza.openclinica.control.CoreSecureController: ", ipe);
        unlockCRFOnError(request);
        // addPageMessage(ipe.getOpenClinicaMessage());
        forwardPage(ipe.getGoTo(), request, response);
    } catch (Exception e) {
        LOGGER.error("Error processing request", e);
        unlockCRFOnError(request);
        forwardPage(Page.ERROR, request, response);
    }
}