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

Example 26 with Workspace

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

the class CohortAnnotationDefinitionControllerTest method createCohortAnnotationDefinition.

@Test
public void createCohortAnnotationDefinition() throws Exception {
    String namespace = "aou-test";
    String name = "test";
    long cohortId = 1;
    long workspaceId = 1;
    long annotationDefinitionId = 1;
    final String columnName = "testing";
    Cohort cohort = createCohort(workspaceId);
    Workspace workspace = createWorkspace(namespace, name, workspaceId);
    CohortAnnotationDefinition request = createClientCohortAnnotationDefinition(annotationDefinitionId, cohortId, columnName, AnnotationType.STRING);
    org.pmiops.workbench.db.model.CohortAnnotationDefinition dbCohortAnnotationDefinition = createDBCohortAnnotationDefinition(cohortId, annotationDefinitionId, request.getAnnotationType(), request.getColumnName());
    WorkspaceAccessLevel owner = WorkspaceAccessLevel.OWNER;
    when(workspaceService.enforceWorkspaceAccessLevel(namespace, name, WorkspaceAccessLevel.WRITER)).thenReturn(owner);
    when(cohortDao.findOne(cohortId)).thenReturn(cohort);
    when(workspaceService.getRequired(namespace, name)).thenReturn(workspace);
    when(cohortAnnotationDefinitionDao.save(dbCohortAnnotationDefinition)).thenReturn(dbCohortAnnotationDefinition);
    when(cohortAnnotationDefinitionDao.findByCohortIdAndColumnName(cohortId, columnName)).thenReturn(null);
    CohortAnnotationDefinition expectedResponse = createClientCohortAnnotationDefinition(annotationDefinitionId, cohortId, columnName, AnnotationType.STRING);
    CohortAnnotationDefinition response = cohortAnnotationDefinitionController.createCohortAnnotationDefinition(namespace, name, cohortId, request).getBody();
    assertEquals(expectedResponse, response);
    verify(cohortDao, times(1)).findOne(cohortId);
    verify(workspaceService, times(1)).getRequired(namespace, name);
    verify(cohortAnnotationDefinitionDao, times(1)).save(dbCohortAnnotationDefinition);
    verify(cohortAnnotationDefinitionDao, times(1)).findByCohortIdAndColumnName(cohortId, columnName);
    verify(workspaceService).enforceWorkspaceAccessLevel(namespace, name, WorkspaceAccessLevel.WRITER);
    verifyNoMoreMockInteractions();
}

Example 27 with Workspace

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

the class CohortAnnotationDefinitionControllerTest method getCohortAnnotationDefinition_NotFoundWorkspace.

@Test
public void getCohortAnnotationDefinition_NotFoundWorkspace() throws Exception {
    String namespace = "aou-test";
    String name = "test";
    long cohortId = 1;
    long annotationDefinitionId = 1;
    long workspaceId = 1;
    long badWorkspaceId = 0;
    Cohort cohort = createCohort(workspaceId);
    Workspace workspace = createWorkspace(namespace, name, badWorkspaceId);
    WorkspaceAccessLevel owner = WorkspaceAccessLevel.OWNER;
    when(workspaceService.enforceWorkspaceAccessLevel(namespace, name, WorkspaceAccessLevel.READER)).thenReturn(owner);
    when(cohortDao.findOne(cohortId)).thenReturn(cohort);
    when(workspaceService.getRequired(namespace, name)).thenReturn(workspace);
    try {
        cohortAnnotationDefinitionController.getCohortAnnotationDefinition(namespace, name, cohortId, annotationDefinitionId);
        fail("Should have thrown a NotFoundException!");
    } catch (NotFoundException e) {
        assertEquals("Not Found: No workspace matching workspaceNamespace: " + namespace + ", workspaceId: " + name, e.getMessage());
    }
    verify(cohortDao, times(1)).findOne(cohortId);
    verify(workspaceService, times(1)).getRequired(namespace, name);
    verify(workspaceService).enforceWorkspaceAccessLevel(namespace, name, WorkspaceAccessLevel.READER);
    verifyNoMoreMockInteractions();
}

Example 28 with Workspace

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

the class CohortAnnotationDefinitionControllerTest method deleteCohortAnnotationDefinition.

@Test
public void deleteCohortAnnotationDefinition() throws Exception {
    String namespace = "aou-test";
    String name = "test";
    long cohortId = 1;
    long workspaceId = 1;
    long annotationDefinitionId = 1;
    String columnName = "name";
    Cohort cohort = createCohort(workspaceId);
    Workspace workspace = createWorkspace(namespace, name, workspaceId);
    org.pmiops.workbench.db.model.CohortAnnotationDefinition cohortAnnotationDefinition = createDBCohortAnnotationDefinition(cohortId, annotationDefinitionId, AnnotationType.STRING, columnName);
    WorkspaceAccessLevel owner = WorkspaceAccessLevel.OWNER;
    when(workspaceService.enforceWorkspaceAccessLevel(namespace, name, WorkspaceAccessLevel.WRITER)).thenReturn(owner);
    when(cohortDao.findOne(cohortId)).thenReturn(cohort);
    when(workspaceService.getRequired(namespace, name)).thenReturn(workspace);
    when(cohortAnnotationDefinitionDao.findByCohortIdAndCohortAnnotationDefinitionId(cohortId, annotationDefinitionId)).thenReturn(cohortAnnotationDefinition);
    doNothing().when(cohortAnnotationDefinitionDao).delete(annotationDefinitionId);
    EmptyResponse response = cohortAnnotationDefinitionController.deleteCohortAnnotationDefinition(namespace, name, cohortId, annotationDefinitionId).getBody();
    assertEquals(new EmptyResponse(), response);
    verify(cohortDao, times(1)).findOne(cohortId);
    verify(workspaceService, times(1)).getRequired(namespace, name);
    verify(cohortAnnotationDefinitionDao, times(1)).findByCohortIdAndCohortAnnotationDefinitionId(cohortId, annotationDefinitionId);
    verify(cohortAnnotationDefinitionDao, times(1)).delete(annotationDefinitionId);
    verify(workspaceService).enforceWorkspaceAccessLevel(namespace, name, WorkspaceAccessLevel.WRITER);
    verifyNoMoreMockInteractions();
}

Example 29 with Workspace

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

the class CohortAnnotationDefinitionControllerTest method updateCohortAnnotationDefinition_BadAnnotationDefinitionId.

@Test
public void updateCohortAnnotationDefinition_BadAnnotationDefinitionId() throws Exception {
    String namespace = "aou-test";
    String name = "test";
    long cohortId = 1;
    long workspaceId = 1;
    long annotationDefinitionId = 1;
    Cohort cohort = createCohort(workspaceId);
    Workspace workspace = createWorkspace(namespace, name, workspaceId);
    ModifyCohortAnnotationDefinitionRequest request = new ModifyCohortAnnotationDefinitionRequest();
    WorkspaceAccessLevel owner = WorkspaceAccessLevel.OWNER;
    when(workspaceService.enforceWorkspaceAccessLevel(namespace, name, WorkspaceAccessLevel.WRITER)).thenReturn(owner);
    when(cohortDao.findOne(cohortId)).thenReturn(cohort);
    when(workspaceService.getRequired(namespace, name)).thenReturn(workspace);
    when(cohortAnnotationDefinitionDao.findByCohortIdAndCohortAnnotationDefinitionId(cohortId, annotationDefinitionId)).thenReturn(null);
    try {
        cohortAnnotationDefinitionController.updateCohortAnnotationDefinition(namespace, name, cohortId, annotationDefinitionId, request);
        fail("Should have thrown a NotFoundException!");
    } catch (NotFoundException e) {
        assertEquals("Not Found: No Cohort Annotation Definition exists for annotationDefinitionId: " + annotationDefinitionId, e.getMessage());
    }
    verify(cohortDao, times(1)).findOne(cohortId);
    verify(workspaceService, times(1)).getRequired(namespace, name);
    verify(cohortAnnotationDefinitionDao, times(1)).findByCohortIdAndCohortAnnotationDefinitionId(cohortId, annotationDefinitionId);
    verify(workspaceService).enforceWorkspaceAccessLevel(namespace, name, WorkspaceAccessLevel.WRITER);
    verifyNoMoreMockInteractions();
}

Example 30 with Workspace

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

the class CohortAnnotationDefinitionControllerTest method updateCohortAnnotationDefinition_NameConflict.

@Test
public void updateCohortAnnotationDefinition_NameConflict() throws Exception {
    String namespace = "aou-test";
    String name = "test";
    long cohortId = 1;
    long workspaceId = 1;
    long annotationDefinitionId = 1;
    final String columnName = "new-name";
    Cohort cohort = createCohort(workspaceId);
    Workspace workspace = createWorkspace(namespace, name, workspaceId);
    ModifyCohortAnnotationDefinitionRequest request = new ModifyCohortAnnotationDefinitionRequest();
    request.setColumnName(columnName);
    org.pmiops.workbench.db.model.CohortAnnotationDefinition definition = createDBCohortAnnotationDefinition(cohortId, annotationDefinitionId, AnnotationType.STRING, "name1");
    WorkspaceAccessLevel owner = WorkspaceAccessLevel.OWNER;
    when(workspaceService.enforceWorkspaceAccessLevel(namespace, name, WorkspaceAccessLevel.WRITER)).thenReturn(owner);
    when(cohortDao.findOne(cohortId)).thenReturn(cohort);
    when(workspaceService.getRequired(namespace, name)).thenReturn(workspace);
    when(cohortAnnotationDefinitionDao.findByCohortIdAndCohortAnnotationDefinitionId(cohortId, annotationDefinitionId)).thenReturn(definition);
    when(cohortAnnotationDefinitionDao.findByCohortIdAndColumnName(cohortId, columnName)).thenReturn(definition);
    try {
        cohortAnnotationDefinitionController.updateCohortAnnotationDefinition(namespace, name, cohortId, annotationDefinitionId, request);
        fail("Should have thrown a ConflictException!");
    } catch (ConflictException e) {
        assertEquals("Conflict: Cohort Annotation Definition name exists for: " + columnName, e.getMessage());
    }
    verify(cohortDao, times(1)).findOne(cohortId);
    verify(workspaceService, times(1)).getRequired(namespace, name);
    verify(cohortAnnotationDefinitionDao, times(1)).findByCohortIdAndCohortAnnotationDefinitionId(cohortId, annotationDefinitionId);
    verify(cohortAnnotationDefinitionDao, times(1)).findByCohortIdAndColumnName(cohortId, columnName);
    verify(workspaceService).enforceWorkspaceAccessLevel(namespace, name, WorkspaceAccessLevel.WRITER);
    verifyNoMoreMockInteractions();
}