Examples with Workspace org.pmiops.workbench.db.model.Workspace used on opensource projects

Example 36 with Workspace

use of org.pmiops.workbench.db.model.Workspace in project workbench by all-of-us.

the class CohortsController method getCohortsInWorkspace.

@Override
public ResponseEntity<CohortListResponse> getCohortsInWorkspace(String workspaceNamespace, String workspaceId) {
    // This also enforces registered auth domain.
    workspaceService.enforceWorkspaceAccessLevel(workspaceNamespace, workspaceId, WorkspaceAccessLevel.READER);
    Workspace workspace = workspaceService.getRequiredWithCohorts(workspaceNamespace, workspaceId);
    CohortListResponse response = new CohortListResponse();
    Set<org.pmiops.workbench.db.model.Cohort> cohorts = workspace.getCohorts();
    if (cohorts != null) {
        response.setItems(cohorts.stream().map(TO_CLIENT_COHORT).sorted(Comparator.comparing(c -> c.getName())).collect(Collectors.toList()));
    }
    return ResponseEntity.ok(response);
}

Example 37 with Workspace

use of org.pmiops.workbench.db.model.Workspace in project workbench by all-of-us.

the class CohortMaterializationServiceTest method setUp.

@Before
public void setUp() {
    cdrVersion = new CdrVersion();
    cdrVersion.setBigqueryDataset(testWorkbenchConfig.bigquery.dataSetId);
    cdrVersion.setBigqueryProject(testWorkbenchConfig.bigquery.projectId);
    cdrVersionDao.save(cdrVersion);
    CdrVersionContext.setCdrVersion(cdrVersion);
    Criteria icd9CriteriaGroup = new Criteria().group(true).name("group").selectable(true).code(SearchRequests.ICD9_GROUP_CODE).type(SearchRequests.ICD9_TYPE).parentId(0);
    criteriaDao.save(icd9CriteriaGroup);
    Criteria icd9CriteriaChild = new Criteria().group(false).name("child").selectable(true).code(SearchRequests.ICD9_GROUP_CODE + ".1").type(SearchRequests.ICD9_TYPE).domainId("Condition").parentId(icd9CriteriaGroup.getId());
    criteriaDao.save(icd9CriteriaChild);
    Workspace workspace = new Workspace();
    workspace.setCdrVersion(cdrVersion);
    workspace.setName("name");
    workspace.setDataAccessLevel(DataAccessLevel.PROTECTED);
    workspaceDao.save(workspace);
    Cohort cohort = new Cohort();
    cohort.setWorkspaceId(workspace.getWorkspaceId());
    cohort.setName("males");
    cohort.setType("AOU");
    Gson gson = new Gson();
    cohort.setCriteria(gson.toJson(SearchRequests.males()));
    cohortDao.save(cohort);
    Cohort cohort2 = new Cohort();
    cohort2.setWorkspaceId(workspace.getWorkspaceId());
    cohort2.setName("all genders");
    cohort2.setType("AOU");
    cohort2.setCriteria(gson.toJson(SearchRequests.allGenders()));
    cohortDao.save(cohort2);
    cohortReview = new CohortReview();
    cohortReview.setCdrVersionId(cdrVersion.getCdrVersionId());
    cohortReview.setCohortId(cohort2.getCohortId());
    cohortReview.setMatchedParticipantCount(3);
    cohortReview.setReviewedCount(2);
    cohortReview.setReviewSize(3);
    cohortReviewDao.save(cohortReview);
    participantCohortStatusDao.save(makeStatus(cohortReview.getCohortReviewId(), 1L, CohortStatus.INCLUDED));
    participantCohortStatusDao.save(makeStatus(cohortReview.getCohortReviewId(), 2L, CohortStatus.EXCLUDED));
}

Example 38 with Workspace

use of org.pmiops.workbench.db.model.Workspace in project workbench by all-of-us.

the class CohortReviewServiceImpl method validateMatchingWorkspace.

@Override
public Workspace validateMatchingWorkspace(String workspaceNamespace, String workspaceName, long workspaceId, WorkspaceAccessLevel accessRequired) {
    // This also enforces registered auth domain.
    workspaceService.enforceWorkspaceAccessLevel(workspaceNamespace, workspaceName, accessRequired);
    Workspace workspace = workspaceService.getRequired(workspaceNamespace, workspaceName);
    if (workspace.getWorkspaceId() != workspaceId) {
        throw new NotFoundException(String.format("Not Found: No workspace matching workspaceNamespace: %s, workspaceId: %s", workspaceNamespace, workspaceName));
    }
    return workspace;
}