Examples with ReferenceFileService ca.corefacility.bioinformatics.irida.service.ReferenceFileService used on opensource projects

Example 1 with ReferenceFileService

use of ca.corefacility.bioinformatics.irida.service.ReferenceFileService in project irida by phac-nml.

the class PipelineControllerTest method setUp.

@Before
public void setUp() {
    referenceFileService = mock(ReferenceFileService.class);
    analysisSubmissionService = mock(AnalysisSubmissionService.class);
    workflowsService = mock(IridaWorkflowsService.class);
    projectService = mock(ProjectService.class);
    userService = mock(UserService.class);
    messageSource = mock(MessageSource.class);
    cartController = mock(CartController.class);
    sequencingObjectService = mock(SequencingObjectService.class);
    namedParameterService = mock(WorkflowNamedParametersService.class);
    updateSamplePermission = mock(UpdateSamplePermission.class);
    analysisSubmissionSampleProcessor = mock(AnalysisSubmissionSampleProcessor.class);
    galaxyToolDataService = mock(GalaxyToolDataService.class);
    controller = new PipelineController(sequencingObjectService, referenceFileService, analysisSubmissionService, workflowsService, projectService, userService, cartController, messageSource, namedParameterService, updateSamplePermission, analysisSubmissionSampleProcessor, galaxyToolDataService);
    when(messageSource.getMessage(any(), any(), any())).thenReturn("");
}

Example 2 with ReferenceFileService

use of ca.corefacility.bioinformatics.irida.service.ReferenceFileService in project irida by phac-nml.

the class ReferenceFileControllerTest method setUp.

@Before
public void setUp() {
    projectService = mock(ProjectService.class);
    referenceFileService = mock(ReferenceFileService.class);
    messageSource = mock(MessageSource.class);
    // Set up the reference file
    Path path = Paths.get(FILE_PATH);
    ReferenceFile file = new ReferenceFile(path);
    when(referenceFileService.read(FILE_ID)).thenReturn(file);
    controller = new ReferenceFileController(projectService, referenceFileService, messageSource);
}