Examples with StudyBean org.akaza.openclinica.bean.managestudy.StudyBean used on opensource projects

Example 6 with StudyBean

use of org.akaza.openclinica.bean.managestudy.StudyBean in project OpenClinica by OpenClinica.

the class UpdateStudyServletNew method processRequest.

@Override
public void processRequest() throws Exception {
    resetPanel();
    FormProcessor fp = new FormProcessor(request);
    Validator v = new Validator(request);
    int studyId = fp.getInt("id");
    studyId = studyId == 0 ? fp.getInt("studyId") : studyId;
    String action = fp.getString("action");
    StudyDAO sdao = new StudyDAO(sm.getDataSource());
    boolean isInterventional = false;
    study = (StudyBean) sdao.findByPK(studyId);
    if (study.getId() != currentStudy.getId()) {
        addPageMessage(respage.getString("not_current_study") + respage.getString("change_study_contact_sysadmin"));
        forwardPage(Page.MENU_SERVLET);
        return;
    }
    study.setId(studyId);
    StudyConfigService scs = new StudyConfigService(sm.getDataSource());
    study = scs.setParametersForStudy(study);
    request.setAttribute("studyToView", study);
    request.setAttribute("studyId", studyId + "");
    request.setAttribute("studyPhaseMap", CreateStudyServlet.studyPhaseMap);
    ArrayList statuses = Status.toStudyUpdateMembersList();
    statuses.add(Status.PENDING);
    request.setAttribute("statuses", statuses);
    String interventional = resadmin.getString("interventional");
    isInterventional = interventional.equalsIgnoreCase(study.getProtocolType());
    request.setAttribute("isInterventional", isInterventional ? "1" : "0");
    String protocolType = study.getProtocolTypeKey();
    // A. Hamid. 5001
    if (study.getParentStudyId() > 0) {
        StudyBean parentStudy = (StudyBean) sdao.findByPK(study.getParentStudyId());
        request.setAttribute("parentStudy", parentStudy);
    }
    ArrayList interventionArray = new ArrayList();
    if (isInterventional) {
        interventionArray = parseInterventions(study);
        setMaps(isInterventional, interventionArray);
    } else {
        setMaps(isInterventional, interventionArray);
    }
    if (!action.equals("submit")) {
        // First Load First Form
        if (study.getDatePlannedStart() != null) {
            fp.addPresetValue(INPUT_START_DATE, local_df.format(study.getDatePlannedStart()));
        }
        if (study.getDatePlannedEnd() != null) {
            fp.addPresetValue(INPUT_END_DATE, local_df.format(study.getDatePlannedEnd()));
        }
        if (study.getProtocolDateVerification() != null) {
            fp.addPresetValue(INPUT_VER_DATE, local_df.format(study.getProtocolDateVerification()));
        }
        setPresetValues(fp.getPresetValues());
    // first load 2nd form
    }
    if (study == null) {
        addPageMessage(respage.getString("please_choose_a_study_to_edit"));
        forwardPage(Page.STUDY_LIST_SERVLET);
        return;
    }
    if (action.equals("submit")) {
        validateStudy1(fp, v);
        validateStudy2(fp, new Validator(request));
        validateStudy3(isInterventional, new Validator(request), fp);
        validateStudy4(fp, new Validator(request));
        validateStudy5(fp, new Validator(request));
        validateStudy6(fp, new Validator(request));
        confirmWholeStudy(fp);
        request.setAttribute("studyToView", study);
        if (!errors.isEmpty()) {
            logger.error("found errors : " + errors.toString());
            request.setAttribute("formMessages", errors);
            forwardPage(Page.UPDATE_STUDY_NEW);
        } else {
            study.setProtocolType(protocolType);
            submitStudy(study);
            addPageMessage(respage.getString("the_study_has_been_updated_succesfully"));
            ArrayList pageMessages = (ArrayList) request.getAttribute(PAGE_MESSAGE);
            session.setAttribute("pageMessages", pageMessages);
            response.sendRedirect(request.getContextPath() + "/pages/studymodule");
        // forwardPage(Page.MANAGE_STUDY_MODULE);
        }
    } else {
        forwardPage(Page.UPDATE_STUDY_NEW);
    }
}

Example 7 with StudyBean

use of org.akaza.openclinica.bean.managestudy.StudyBean in project OpenClinica by OpenClinica.

the class UpdateStudyServlet method confirmStudy4.

/**
     * Validates the forth section of study and save it into study bean
     * 
     * @param request
     * @param response
     * @throws Exception
     */
private void confirmStudy4() throws Exception {
    FormProcessor fp = new FormProcessor(request);
    Validator v = new Validator(request);
    v.addValidation("conditions", Validator.LENGTH_NUMERIC_COMPARISON, NumericComparisonOperator.LESS_THAN_OR_EQUAL_TO, 500);
    v.addValidation("keywords", Validator.LENGTH_NUMERIC_COMPARISON, NumericComparisonOperator.LESS_THAN_OR_EQUAL_TO, 255);
    v.addValidation("eligibility", Validator.LENGTH_NUMERIC_COMPARISON, NumericComparisonOperator.LESS_THAN_OR_EQUAL_TO, 500);
    errors = v.validate();
    if (fp.getInt("expectedTotalEnrollment") <= 0) {
        Validator.addError(errors, "expectedTotalEnrollment", respage.getString("expected_total_enrollment_must_be_a_positive_number"));
    }
    StudyBean newStudy = (StudyBean) session.getAttribute("newStudy");
    newStudy.setConditions(fp.getString("conditions"));
    newStudy.setKeywords(fp.getString("keywords"));
    newStudy.setEligibility(fp.getString("eligibility"));
    newStudy.setGender(fp.getString("gender"));
    newStudy.setAgeMax(fp.getString("ageMax"));
    newStudy.setAgeMin(fp.getString("ageMin"));
    newStudy.setHealthyVolunteerAccepted(fp.getBoolean("healthyVolunteerAccepted"));
    newStudy.setExpectedTotalEnrollment(fp.getInt("expectedTotalEnrollment"));
    session.setAttribute("newStudy", newStudy);
    request.setAttribute("facRecruitStatusMap", CreateStudyServlet.facRecruitStatusMap);
    if (errors.isEmpty()) {
        forwardPage(Page.UPDATE_STUDY6);
    } else {
        request.setAttribute("formMessages", errors);
        forwardPage(Page.UPDATE_STUDY5);
    }
}

Example 8 with StudyBean

use of org.akaza.openclinica.bean.managestudy.StudyBean in project OpenClinica by OpenClinica.

the class UpdateStudyServlet method updateStudy2.

/**
     * Updates the study bean with inputs from second section
     * 
     * @param request
     * @return true if study type is Interventional, otherwise false
     */
private boolean updateStudy2() {
    FormProcessor fp = new FormProcessor(request);
    StudyBean newStudy = (StudyBean) session.getAttribute("newStudy");
    // this is not fully supported yet, because the system will not handle
    // studies which are pending
    // or private...
    newStudy.setStatus(Status.get(fp.getInt("statusId")));
    newStudy.setProtocolDateVerification(fp.getDate(INPUT_VER_DATE));
    newStudy.setDatePlannedStart(fp.getDate(INPUT_START_DATE));
    if (StringUtil.isBlank(fp.getString(INPUT_END_DATE))) {
        newStudy.setDatePlannedEnd(null);
    } else {
        newStudy.setDatePlannedEnd(fp.getDate(INPUT_END_DATE));
    }
    newStudy.setPhase(fp.getString("phase"));
    if (fp.getInt("genetic") == 1) {
        newStudy.setGenetic(true);
    } else {
        newStudy.setGenetic(false);
    }
    session.setAttribute("newStudy", newStudy);
    String interventional = resadmin.getString("interventional");
    return interventional.equalsIgnoreCase(newStudy.getProtocolType());
}

Example 9 with StudyBean

use of org.akaza.openclinica.bean.managestudy.StudyBean in project OpenClinica by OpenClinica.

the class UserAccountDAO method findStudyByUser.

/**
     * Finds all the studies with roles for a user
     *
     * @param userName
     * @param allStudies
     *            The result of calling StudyDAO.findAll();
     */
public ArrayList findStudyByUser(String userName, ArrayList allStudies) {
    this.unsetTypeExpected();
    this.setTypeExpected(1, TypeNames.STRING);
    this.setTypeExpected(2, TypeNames.INT);
    this.setTypeExpected(3, TypeNames.STRING);
    HashMap allStudyUserRoleBeans = new HashMap();
    HashMap variables = new HashMap();
    variables.put(new Integer(1), userName);
    ArrayList alist = this.select(digester.getQuery("findStudyByUser"), variables);
    Iterator it = alist.iterator();
    while (it.hasNext()) {
        HashMap hm = (HashMap) it.next();
        String roleName = (String) hm.get("role_name");
        String studyName = (String) hm.get("name");
        Integer studyId = (Integer) hm.get("study_id");
        StudyUserRoleBean sur = new StudyUserRoleBean();
        sur.setRoleName(roleName);
        sur.setStudyId(studyId.intValue());
        sur.setStudyName(studyName);
        allStudyUserRoleBeans.put(studyId, sur);
    }
    // pseudocode:
    // for each parent study P in the system
    // if the user has a role in that study, add it to the answer
    // otherwise, let parentAdded = false
    //
    // for each study, C, which is a child of P
    // if the user has a role in C,
    // if parentAdded = false
    // add a StudyUserRole with study = P, role = invalid to the answer
    // let parentAdded = true
    // add the user's role in C to the answer
    ArrayList answer = new ArrayList();
    StudyDAO sdao = new StudyDAO(ds);
    HashMap childrenByParentId = sdao.getChildrenByParentIds(allStudies);
    for (int i = 0; i < allStudies.size(); i++) {
        StudyBean parent = (StudyBean) allStudies.get(i);
        if (parent == null || parent.getParentStudyId() > 0) {
            continue;
        }
        boolean parentAdded = false;
        Integer studyId = new Integer(parent.getId());
        StudyUserRoleBean roleInStudy;
        ArrayList subTreeRoles = new ArrayList();
        if (allStudyUserRoleBeans.containsKey(studyId)) {
            roleInStudy = (StudyUserRoleBean) allStudyUserRoleBeans.get(studyId);
            subTreeRoles.add(roleInStudy);
            parentAdded = true;
        } else {
            // we do this so that we can compute Role.max below
            // without
            // throwing a NullPointerException
            roleInStudy = new StudyUserRoleBean();
        }
        ArrayList children = (ArrayList) childrenByParentId.get(studyId);
        if (children == null) {
            children = new ArrayList();
        }
        for (int j = 0; j < children.size(); j++) {
            StudyBean child = (StudyBean) children.get(j);
            Integer childId = new Integer(child.getId());
            if (allStudyUserRoleBeans.containsKey(childId)) {
                if (!parentAdded) {
                    roleInStudy.setStudyId(studyId.intValue());
                    roleInStudy.setRole(Role.INVALID);
                    roleInStudy.setStudyName(parent.getName());
                    subTreeRoles.add(roleInStudy);
                    parentAdded = true;
                }
                StudyUserRoleBean roleInChild = (StudyUserRoleBean) allStudyUserRoleBeans.get(childId);
                Role max = Role.max(roleInChild.getRole(), roleInStudy.getRole());
                roleInChild.setRole(max);
                roleInChild.setParentStudyId(studyId.intValue());
                subTreeRoles.add(roleInChild);
            } else {
                StudyUserRoleBean roleInChild = new StudyUserRoleBean();
                roleInChild.setStudyId(child.getId());
                roleInChild.setStudyName(child.getName());
                roleInChild.setRole(roleInStudy.getRole());
                roleInChild.setParentStudyId(studyId.intValue());
                subTreeRoles.add(roleInChild);
            }
        }
        if (parentAdded) {
            answer.addAll(subTreeRoles);
        }
    }
    return answer;
}

Example 10 with StudyBean

use of org.akaza.openclinica.bean.managestudy.StudyBean in project OpenClinica by OpenClinica.

the class StudyDAO method findAllByUserNotRemoved.

// YW 10-18-2007
public Collection findAllByUserNotRemoved(String username) {
    this.unsetTypeExpected();
    this.setTypesExpected();
    HashMap variables = new HashMap();
    variables.put(new Integer(1), username);
    ArrayList alist = this.select(digester.getQuery("findAllByUserNotRemoved"), variables);
    ArrayList al = new ArrayList();
    Iterator it = alist.iterator();
    while (it.hasNext()) {
        StudyBean eb = (StudyBean) this.getEntityFromHashMap((HashMap) it.next());
        al.add(eb);
    }
    return al;
}