private UserAccountBean getUserAccount() {
Object principal = SecurityContextHolder.getContext().getAuthentication().getPrincipal();
String username = null;
if (principal instanceof UserDetails) {
username = ((UserDetails) principal).getUsername();
} else {
username = principal.toString();
}
UserAccountDAO userAccountDao = new UserAccountDAO(dataSource);
return (UserAccountBean) userAccountDao.findByUserName(username);
}
@RequestMapping(value = "/studies/{study}/metadata", method = RequestMethod.GET)
public ModelAndView studyMetadata(
Model model,
HttpSession session,
@PathVariable("study") String studyOid,
HttpServletResponse response)
throws Exception {
ResourceBundleProvider.updateLocale(new Locale("en_US"));
StudyBean currentStudy = (StudyBean) session.getAttribute("study");
UserAccountBean userAccount = (UserAccountBean) session.getAttribute("userBean");
UserAccountDAO userAccountDao = new UserAccountDAO(dataSource);
userAccount = (UserAccountBean) userAccountDao.findByUserName("root");
StudyDAO studyDao = new StudyDAO(dataSource);
currentStudy = studyDao.findByOid(studyOid);
MetaDataCollector mdc = new MetaDataCollector(dataSource, currentStudy, getRuleSetRuleDao());
AdminDataCollector adc = new AdminDataCollector(dataSource, currentStudy);
// RulesDataCollector rdc = new RulesDataCollector(sm.getDataSource(),
// currentStudy,getRuleSetRuleDao());
MetaDataCollector.setTextLength(200);
ODMBean odmb = mdc.getODMBean();
odmb.setSchemaLocation("http://www.cdisc.org/ns/odm/v1.3 OpenClinica-ODM1-3-0-OC2-0.xsd");
ArrayList<String> xmlnsList = new ArrayList<String>();
xmlnsList.add("xmlns=\"http://www.cdisc.org/ns/odm/v1.3\"");
// xmlnsList.add("xmlns:OpenClinica=\"http://www.openclinica.org/ns/openclinica_odm/v1.3\"");
xmlnsList.add("xmlns:OpenClinica=\"http://www.openclinica.org/ns/odm_ext_v130/v3.1\"");
xmlnsList.add("xmlns:OpenClinicaRules=\"http://www.openclinica.org/ns/rules/v3.1\"");
odmb.setXmlnsList(xmlnsList);
odmb.setODMVersion("oc1.3");
mdc.setODMBean(odmb);
adc.setOdmbean(odmb);
// rdc.setOdmbean(odmb);
mdc.collectFileData();
MetaDataReportBean metaReport = new MetaDataReportBean(mdc.getOdmStudyMap(), coreResources);
metaReport.setODMVersion("oc1.3");
metaReport.setOdmBean(mdc.getODMBean());
metaReport.createChunkedOdmXml(Boolean.FALSE);
adc.collectFileData();
AdminDataReportBean adminReport = new AdminDataReportBean(adc.getOdmAdminDataMap());
adminReport.setODMVersion("oc1.3");
adminReport.setOdmBean(mdc.getODMBean());
adminReport.createChunkedOdmXml(Boolean.FALSE);
// rdc.collectFileData();
// RulesDataReportBean rulesReport = new
// RulesDataReportBean(rdc.getOdmRulesDataMap(),getCoreResources());
// rulesReport.setODMVersion("oc1.3");
// rulesReport.setOdmBean(mdc.getODMBean());
// rulesReport.createChunkedOdmXml(Boolean.FALSE);
FullReportBean report = new FullReportBean();
report.setAdminDataMap(adc.getOdmAdminDataMap());
report.setOdmStudyMap(mdc.getOdmStudyMap());
report.setCoreResources(coreResources);
// report.setRulesDataMap(rdc.getOdmRulesDataMap());
report.setOdmBean(mdc.getODMBean());
report.setODMVersion("oc1.3");
report.createStudyMetaOdmXml(Boolean.FALSE);
response.setContentType("application/xml");
PrintWriter out = response.getWriter();
out.print(report.getXmlOutput().toString().trim());
return null;
}
@Override
public void processRequest() throws Exception {
UserAccountDAO udao = new UserAccountDAO(sm.getDataSource());
StudyDAO sdao = new StudyDAO(sm.getDataSource());
String name = request.getParameter("name");
String studyIdString = request.getParameter("studyId");
if (StringUtil.isBlank(name) || StringUtil.isBlank(studyIdString)) {
addPageMessage(respage.getString("please_choose_a_user_to_set_role_for"));
forwardPage(Page.LIST_USER_IN_STUDY_SERVLET);
} else {
String action = request.getParameter("action");
FormProcessor fp = new FormProcessor(request);
UserAccountBean user = (UserAccountBean) udao.findByUserName(name);
StudyBean userStudy = (StudyBean) sdao.findByPK(fp.getInt("studyId"));
if ("confirm".equalsIgnoreCase(action)) {
int studyId = Integer.valueOf(studyIdString.trim()).intValue();
request.setAttribute("user", user);
StudyUserRoleBean uRole = udao.findRoleByUserNameAndStudyId(name, studyId);
uRole.setStudyName(userStudy.getName());
request.setAttribute("uRole", uRole);
ArrayList roles = Role.toArrayList();
roles.remove(Role.ADMIN); // admin is not a user role, only used for tomcat
StudyBean studyBean = (StudyBean) sdao.findByPK(uRole.getStudyId());
if (currentStudy.getParentStudyId() > 0) {
roles.remove(Role.COORDINATOR);
roles.remove(Role.STUDYDIRECTOR);
} else if (studyBean.getParentStudyId() > 0) {
roles.remove(Role.COORDINATOR);
roles.remove(Role.STUDYDIRECTOR);
// TODO: redo this fix
Role r = Role.RESEARCHASSISTANT;
r.setDescription("site_Data_Entry_Person");
roles.remove(Role.RESEARCHASSISTANT);
roles.add(r);
Role ri = Role.INVESTIGATOR;
ri.setDescription("site_investigator");
roles.remove(Role.INVESTIGATOR);
roles.add(ri);
}
request.setAttribute("roles", roles);
forwardPage(Page.SET_USER_ROLE_IN_STUDY);
} else {
// set role
String userName = fp.getString("name");
int studyId = fp.getInt("studyId");
int roleId = fp.getInt("roleId");
StudyUserRoleBean sur = new StudyUserRoleBean();
sur.setName(userName);
sur.setRole(Role.get(roleId));
sur.setStudyId(studyId);
sur.setStudyName(userStudy.getName());
sur.setStatus(Status.AVAILABLE);
sur.setUpdater(ub);
sur.setUpdatedDate(new Date());
udao.updateStudyUserRole(sur, userName);
addPageMessage(sendEmail(user, sur));
forwardPage(Page.LIST_USER_IN_STUDY_SERVLET);
}
}
}