Examples with SampleRepository ca.corefacility.bioinformatics.irida.repositories.sample.SampleRepository used on opensource projects

Example 1 with SampleRepository

use of ca.corefacility.bioinformatics.irida.repositories.sample.SampleRepository in project irida by phac-nml.

the class ProjectServiceImplTest method setUp.

@Before
public void setUp() {
    validator = mock(Validator.class);
    projectRepository = mock(ProjectRepository.class);
    sampleRepository = mock(SampleRepository.class);
    userRepository = mock(UserRepository.class);
    pujRepository = mock(ProjectUserJoinRepository.class);
    psjRepository = mock(ProjectSampleJoinRepository.class);
    relatedProjectRepository = mock(RelatedProjectRepository.class);
    referenceFileRepository = mock(ReferenceFileRepository.class);
    prfjRepository = mock(ProjectReferenceFileJoinRepository.class);
    ugpjRepository = mock(UserGroupProjectJoinRepository.class);
    sequencingObjectRepository = mock(SequencingObjectRepository.class);
    projectService = new ProjectServiceImpl(projectRepository, sampleRepository, userRepository, pujRepository, psjRepository, relatedProjectRepository, referenceFileRepository, prfjRepository, ugpjRepository, ssoRepository, pasRepository, sequencingObjectRepository, validator);
}

Example 2 with SampleRepository

use of ca.corefacility.bioinformatics.irida.repositories.sample.SampleRepository in project irida by phac-nml.

the class SampleServiceImplTest method setUp.

@Before
public void setUp() {
    sampleRepository = mock(SampleRepository.class);
    psjRepository = mock(ProjectSampleJoinRepository.class);
    analysisRepository = mock(AnalysisRepository.class);
    ssoRepository = mock(SampleSequencingObjectJoinRepository.class);
    qcEntryRepository = mock(QCEntryRepository.class);
    sequencingObjectRepository = mock(SequencingObjectRepository.class);
    sampleGenomeAssemblyJoinRepository = mock(SampleGenomeAssemblyJoinRepository.class);
    ValidatorFactory factory = Validation.buildDefaultValidatorFactory();
    validator = factory.getValidator();
    sampleService = new SampleServiceImpl(sampleRepository, psjRepository, analysisRepository, ssoRepository, qcEntryRepository, sequencingObjectRepository, sampleGenomeAssemblyJoinRepository, userRepository, validator);
}

Example 3 with SampleRepository

use of ca.corefacility.bioinformatics.irida.repositories.sample.SampleRepository in project irida by phac-nml.

the class ReadSamplePermissionTest method setUp.

@Before
public void setUp() {
    sampleRepository = mock(SampleRepository.class);
    psjRepository = mock(ProjectSampleJoinRepository.class);
    readProjectPermission = mock(ReadProjectPermission.class);
    readSamplePermission = new ReadSamplePermission(sampleRepository, psjRepository, readProjectPermission);
}

Example 4 with SampleRepository

use of ca.corefacility.bioinformatics.irida.repositories.sample.SampleRepository in project irida by phac-nml.

the class ReadSequencingObjectPermissionTest method setUp.

@Before
public void setUp() {
    userRepository = mock(UserRepository.class);
    ssoRepository = mock(SampleSequencingObjectJoinRepository.class);
    sequencingObjectRepository = mock(SequencingObjectRepository.class);
    psjRepository = mock(ProjectSampleJoinRepository.class);
    sampleRepository = mock(SampleRepository.class);
    readProjectPermission = mock(ReadProjectPermission.class);
    samplePermission = new ReadSamplePermission(sampleRepository, psjRepository, readProjectPermission);
    permission = new ReadSequencingObjectPermission(sequencingObjectRepository, samplePermission, ssoRepository);
}

Example 5 with SampleRepository

use of ca.corefacility.bioinformatics.irida.repositories.sample.SampleRepository in project irida by phac-nml.

the class UpdateSamplePermissionTest method setUp.

@Before
public void setUp() {
    projectSampleJoinRepository = mock(ProjectSampleJoinRepository.class);
    projectOwnerPermission = mock(ProjectOwnerPermission.class);
    sampleRepository = mock(SampleRepository.class);
    updateSamplePermission = new UpdateSamplePermission(sampleRepository, projectOwnerPermission, projectSampleJoinRepository);
    Collection<GrantedAuthority> roles = new ArrayList<>();
    roles.add(Role.ROLE_USER);
    auth = new UsernamePasswordAuthenticationToken("fbristow", "password1", roles);
}