Example usage for org.apache.shiro SecurityUtils getSubject

Introduction

In this page you can find the example usage for org.apache.shiro SecurityUtils getSubject.

Prototype

public static Subject getSubject() 

Source Link

Document

Returns the currently accessible Subject available to the calling code depending on runtime environment.

Usage

From source file:au.org.theark.lims.web.component.biospecimen.form.ContainerForm.java

License:Open Source License

/**
 * Returns a list of Studies the user is permitted to access
 * //from  www. ja v  a 2s. c  o  m
 * @return
 */
public List<Study> getStudyListForUser() {
    List<Study> studyList = new ArrayList<Study>(0);
    try {
        Subject currentUser = SecurityUtils.getSubject();
        ArkUser arkUser = iArkCommonService.getArkUser(currentUser.getPrincipal().toString());
        ArkUserVO arkUserVo = new ArkUserVO();
        arkUserVo.setArkUserEntity(arkUser);

        Long sessionArkModuleId = (Long) SecurityUtils.getSubject().getSession()
                .getAttribute(au.org.theark.core.Constants.ARK_MODULE_KEY);
        ArkModule arkModule = null;
        //arkModule = iArkCommonService.getArkModuleById(sessionArkModuleId);
        //studyList = iArkCommonService.getStudyListForUserAndModule(arkUserVo, arkModule);
        Long sessionStudyId = (Long) SecurityUtils.getSubject().getSession()
                .getAttribute(au.org.theark.core.Constants.STUDY_CONTEXT_ID);
        if (sessionStudyId != null) {
            studyList = iArkCommonService.getParentAndChildStudies(sessionStudyId);
            getModelObject().setStudyList(studyList);
        }
        getModelObject().setStudyList(studyList);
    } catch (EntityNotFoundException e) {
        log.error(e.getMessage());
    }
    return studyList;
}

---

From source file:au.org.theark.lims.web.component.biospecimen.form.SearchForm.java

License:Open Source License

private void initStudyDdc() {
    CompoundPropertyModel<LimsVO> limsCpm = cpmModel;
    PropertyModel<Study> studyPm = new PropertyModel<Study>(limsCpm, "study");
    List<Study> studyListForUser = new ArrayList<Study>(0);
    try {//from w w w  . ja v  a 2s.  c o m
        Subject currentUser = SecurityUtils.getSubject();
        ArkUser arkUser = iArkCommonService.getArkUser(currentUser.getPrincipal().toString());
        ArkUserVO arkUserVo = new ArkUserVO();
        arkUserVo.setArkUserEntity(arkUser);

        //Long sessionArkModuleId = (Long) SecurityUtils.getSubject().getSession().getAttribute(au.org.theark.core.Constants.ARK_MODULE_KEY);
        //ArkModule arkModule = null;
        //arkModule = iArkCommonService.getArkModuleById(sessionArkModuleId);
        //studyListForUser = iArkCommonService.getStudyListForUserAndModule(arkUserVo, arkModule);

        Long sessionStudyId = (Long) SecurityUtils.getSubject().getSession()
                .getAttribute(au.org.theark.core.Constants.STUDY_CONTEXT_ID);
        if (sessionStudyId != null) {
            studyListForUser = iArkCommonService.getParentAndChildStudies(sessionStudyId);
            cpmModel.getObject().setStudyList(studyListForUser);
        }
    } catch (EntityNotFoundException e) {
        log.error(e.getMessage());
    }
    ChoiceRenderer<Study> studyRenderer = new ChoiceRenderer<Study>(Constants.NAME, Constants.ID);
    studyDdc = new DropDownChoice<Study>("study", studyPm, (List<Study>) studyListForUser, studyRenderer) {
        @Override
        protected void onBeforeRender() {
            Long sessionStudyId = (Long) SecurityUtils.getSubject().getSession()
                    .getAttribute(au.org.theark.core.Constants.STUDY_CONTEXT_ID);
            Study study = iArkCommonService.getStudy(sessionStudyId);
            cpmModel.getObject().setStudy(study);
            super.onBeforeRender();
        };
    };
}

---

From source file:au.org.theark.lims.web.component.biospecimencustomdata.BiospecimenCustomDataContainerPanel.java

License:Open Source License

protected boolean prerenderContextCheck() {
    // Get the Study, SubjectUID and ArkModule from Context
    Long sessionStudyId = (Long) SecurityUtils.getSubject().getSession()
            .getAttribute(au.org.theark.core.Constants.STUDY_CONTEXT_ID);
    Long sessionBiospecimenId = (Long) SecurityUtils.getSubject().getSession()
            .getAttribute(au.org.theark.lims.web.Constants.BIOSPECIMEN);
    Long sessionArkModuleId = (Long) SecurityUtils.getSubject().getSession()
            .getAttribute(au.org.theark.core.Constants.ARK_MODULE_KEY);

    boolean contextLoaded = false;
    if ((sessionStudyId != null) && (sessionBiospecimenId != null)) {
        Biospecimen biospecimen = null;/*from www . j  a v  a  2  s .  c  o m*/
        ArkModule arkModule = null;
        Study study = null;
        try {
            study = iArkCommonService.getStudy(sessionStudyId);
            cpModel.getObject().getBiospecimen().setStudy(study);
            biospecimen = iLimsService.getBiospecimen(sessionBiospecimenId);
            cpModel.getObject().setBiospecimen(biospecimen);
            arkModule = iArkCommonService.getArkModuleById(sessionArkModuleId);
            // cpModel.getObject().setArkModule(arkModule);
            if (study != null && biospecimen != null && arkModule != null) {
                contextLoaded = true;
                cpModel.getObject().setArkFunction(iArkCommonService
                        .getArkFunctionByName(au.org.theark.core.Constants.FUNCTION_KEY_VALUE_BIOSPECIMEN));
            }
        } catch (EntityNotFoundException e) {
            log.error(e.getMessage());
        }
    }
    return contextLoaded;
}

---

From source file:au.org.theark.lims.web.component.biospecimenuidtemplate.BiospecimenUidTemplateContainerPanel.java

License:Open Source License

public BiospecimenUidTemplateContainerPanel(String id, WebMarkupContainer arkContextMarkup) {
    super(id);// ww w .j  a  v  a 2 s.  c  o m
    this.arkContextMarkup = arkContextMarkup;
    BiospecimenUidTemplate BiospecimenUidTemplate = new BiospecimenUidTemplate();
    Long sessionStudyId = (Long) SecurityUtils.getSubject().getSession()
            .getAttribute(au.org.theark.core.Constants.SESSION_STUDY_KEY);
    if (sessionStudyId != null) {
        Study study = iArkCommonService.getStudy(sessionStudyId);
        BiospecimenUidTemplate.setStudy(study);
    }
    cpModel = new CompoundPropertyModel<BiospecimenUidTemplate>(BiospecimenUidTemplate);
    arkCrudContainerVO = new ArkCrudContainerVO();

    initialisePanel();
}

---

From source file:au.org.theark.lims.web.component.biospecimenuidtemplate.form.DetailForm.java

License:Open Source License

/**
 * Returns a list of Studies the user is permitted to access
 * /* w  w w  . j  a  v a 2  s .c om*/
 * @return
 */
private List<Study> getStudyListForUser() {
    List<Study> studyListForUser = new ArrayList<Study>(0);
    try {
        Subject currentUser = SecurityUtils.getSubject();
        ArkUser arkUser = iArkCommonService.getArkUser(currentUser.getPrincipal().toString());
        ArkUserVO arkUserVo = new ArkUserVO();
        arkUserVo.setArkUserEntity(arkUser);

        Long sessionArkModuleId = (Long) SecurityUtils.getSubject().getSession()
                .getAttribute(au.org.theark.core.Constants.ARK_MODULE_KEY);
        ArkModule arkModule = null;
        arkModule = iArkCommonService.getArkModuleById(sessionArkModuleId);
        studyListForUser = iArkCommonService.getStudyListForUserAndModule(arkUserVo, arkModule);

        // Remove possible Study's already assigned a BiospecimenUidTemplate
        if (isNew()) {
            studyListForUser.removeAll(iLimsAdminService.getStudyListAssignedToBiospecimenUidTemplate());
        }
    } catch (EntityNotFoundException e) {
        log.error(e.getMessage());
    }
    return studyListForUser;
}

---

From source file:au.org.theark.lims.web.component.biospecimenupload.BiospecimenUploadContainerPanel.java

License:Open Source License

public BiospecimenUploadContainerPanel(String id, ArkFunction arkFunction) {
    super(id);/*from  w w  w  .  j  a v a2  s.c  om*/

    /* Initialise the CPM */
    cpModel = new CompoundPropertyModel<UploadVO>(new UploadVO());
    this.arkFunction = arkFunction;
    /* Bind the CPM to the Form */
    containerForm = new ContainerForm("containerForm", cpModel);

    Long sessionStudyId = (Long) SecurityUtils.getSubject().getSession()
            .getAttribute(au.org.theark.core.Constants.STUDY_CONTEXT_ID);
    Study study = null;
    if (sessionStudyId != null) {
        study = iArkCommonService.getStudy(sessionStudyId);
    }
    cpModel.getObject().getUpload().setStudy(study);
    containerForm.add(initialiseFeedBackPanel());
    // containerForm.add(initialiseDetailPanel());
    containerForm.add(initialiseWizardPanel());
    containerForm.add(initialiseSearchResults());
    // containerForm.add(initialiseSearchPanel());
    containerForm.setMultiPart(true);
    add(containerForm);
}

---

From source file:au.org.theark.lims.web.component.biospecimenupload.BiospecimenUploadContainerPanel.java

License:Open Source License

protected WebMarkupContainer initialiseSearchResults() {
    searchResultPanel = new SearchResultListPanel("searchResults", feedBackPanel, containerForm,
            arkCrudContainerVO);// w  w  w.j a v  a  2s  .  co  m

    iModel = new LoadableDetachableModel<Object>() {
        private static final long serialVersionUID = 1L;

        @Override
        protected Object load() {
            // Return all Uploads for the Study in context
            java.util.Collection<Upload> studyUploads = new ArrayList<Upload>();
            if (isActionPermitted()) {
                Upload studyUpload = new Upload();
                List<Study> studyListForUser = new ArrayList<Study>(0);
                Long sessionStudyId = (Long) SecurityUtils.getSubject().getSession()
                        .getAttribute(au.org.theark.core.Constants.STUDY_CONTEXT_ID);
                Study study = null;
                if (sessionStudyId != null) {
                    study = iArkCommonService.getStudy(sessionStudyId);
                    studyUpload.setStudy(study);
                    studyUpload.setArkFunction(arkFunction);
                    studyListForUser.add(study);
                    studyUploads = iArkCommonService.searchUploadsForBiospecimen(studyUpload, studyListForUser);
                }
            }
            listView.removeAll();
            return studyUploads;
        }
    };

    listView = searchResultPanel.buildPageableListView(iModel);
    listView.setReuseItems(true);
    PagingNavigator pageNavigator = new PagingNavigator("navigator", listView);
    searchResultPanel.add(pageNavigator);
    searchResultPanel.add(listView);
    arkCrudContainerVO.getSearchResultPanelContainer().add(searchResultPanel);
    searchResultPanel.setVisible(true);

    return arkCrudContainerVO.getSearchResultPanelContainer();
}

---

From source file:au.org.theark.lims.web.component.biospecimenupload.BiospecimenUploadStep1.java

License:Open Source License

private void initialiseDropDownChoices() {
    // Initialise Drop Down Choices
    java.util.Collection<DelimiterType> delimiterTypeCollection = iArkCommonService.getDelimiterTypes();
    ChoiceRenderer<DelimiterType> choiceRenderer = new ChoiceRenderer<DelimiterType>(Constants.NAME,
            Constants.ID);/* w w  w  .  j a v a2s. co m*/
    delimiterTypeDdc = new DropDownChoice<DelimiterType>(Constants.UPLOADVO_UPLOAD_DELIMITER_TYPE,
            (List<DelimiterType>) delimiterTypeCollection, choiceRenderer);
    // Set to default delimiterType
    containerForm.getModelObject().getUpload()
            .setDelimiterType(iArkCommonService.getDelimiterType(new Long(1)));//TODO:  This looks hardcoded...please check different types

    java.util.Collection<UploadType> uploadTypeCollection = iArkCommonService.getUploadTypesForLims();
    ChoiceRenderer uploadTypeRenderer = new ChoiceRenderer(Constants.UPLOAD_TYPE_NAME,
            Constants.UPLOAD_TYPE_ID);
    uploadTypeDdc = new DropDownChoice<UploadType>(Constants.UPLOADVO_UPLOAD_UPLOAD_TYPE,
            (List) uploadTypeCollection, uploadTypeRenderer);

    List<Study> studyListForUser = new ArrayList<Study>(0);
    Long sessionStudyId = (Long) SecurityUtils.getSubject().getSession()
            .getAttribute(au.org.theark.core.Constants.STUDY_CONTEXT_ID);
    Study study = null;
    if (sessionStudyId != null) {
        study = iArkCommonService.getStudy(sessionStudyId);
        studyListForUser.add(study);
    }
    ChoiceRenderer<Study> studyRenderer = new ChoiceRenderer<Study>(Constants.NAME, Constants.ID);
    PropertyModel<Study> pModel = new PropertyModel<Study>(containerForm.getModelObject(), "upload.study");
    studyDdc = new DropDownChoice<Study>(Constants.UPLOADVO_UPLOAD_STUDY, pModel,
            (List<Study>) studyListForUser, studyRenderer);
    containerForm.getModelObject().getUpload().setUploadType(iArkCommonService.getDefaultUploadType());
}

---

From source file:au.org.theark.lims.web.component.biospecimenupload.form.DetailForm.java

License:Open Source License

@Override
protected void onSave(Form<UploadVO> containerForm, AjaxRequestTarget target) {
    // Implement Save/Update
    if (containerForm.getModelObject().getUpload().getId() == null) {
        setMultiPart(true); // multipart required for file uploads

        // Set study in context
        Long studyId = (Long) SecurityUtils.getSubject().getSession()
                .getAttribute(au.org.theark.core.Constants.STUDY_CONTEXT_ID);
        Study study = iArkCommonService.getStudy(studyId);

        // TODO: AJAX-ified and asynchronous and hit database
        FileUpload fileUpload = fileUploadField.getFileUpload();
        Payload payload = iArkCommonService.createPayload(fileUpload.getBytes());

        containerForm.getModelObject().getUpload().setPayload(payload);

        // Set details of Upload object
        containerForm.getModelObject().getUpload().setStudy(study);

        byte[] byteArray = fileUpload.getMD5();
        String checksum = getHex(byteArray);
        containerForm.getModelObject().getUpload().setChecksum(checksum);
        containerForm.getModelObject().getUpload().setFilename(fileUpload.getClientFileName());

        // Save/*from ww w .  j  av  a 2  s.co  m*/
        containerForm.getModelObject().getUpload().setArkFunction(arkFunction);
        containerForm.getModelObject().getUpload()
                .setUploadStatus(iArkCommonService.getUploadStatusFor(Constants.UPLOAD_STATUS_COMPLETED));
        try {
            iArkCommonService.createUpload(containerForm.getModelObject().getUpload());
        } catch (Exception e) {
            error("There was a problem during the upload process.");
            processErrors(target);
        }
        this.saveInformation();
        //this.info("Subject upload " + containerForm.getModelObject().getUpload().getFilename() + " was created successfully");
        processErrors(target);
    } else {
        // Update
        containerForm.getModelObject().getUpload().setArkFunction(arkFunction);
        iArkCommonService.updateUpload(containerForm.getModelObject().getUpload());
        this.updateInformation();
        //this.info("Subject upload " + containerForm.getModelObject().getUpload().getFilename() + " was updated successfully");
        processErrors(target);
    }

    onSavePostProcess(target);
    /*
     * TODO:(CE) To handle Business and System Exceptions here
     */
}

---

From source file:au.org.theark.lims.web.component.biospecimenupload.form.SearchForm.java

License:Open Source License

public SearchForm(String id, CompoundPropertyModel<UploadVO> model, PageableListView<Upload> listView,
        FeedbackPanel feedBackPanel, ArkCrudContainerVO arkCrudContainerVO) {
    super(id, model, feedBackPanel, arkCrudContainerVO);
    this.cpmModel = model;
    this.listView = listView;
    initialiseFieldForm();// www .j a  v a  2  s. co m

    Long sessionStudyId = (Long) SecurityUtils.getSubject().getSession()
            .getAttribute(au.org.theark.core.Constants.STUDY_CONTEXT_ID);
    disableSearchForm(sessionStudyId, "There is no study selected. Please select a study.");
}

---

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