Java FileAnnotation类代码示例

import omero.model.FileAnnotation; //导入依赖的package包/类
@Test
public void listFilesAttachedToContainerShouldConvertNullsToEmptyResult() throws ServerError {
    metadataPrxMock.returns(null).loadSpecifiedAnnotationsLinkedTo(
                    FileAnnotation.class.getName(),
                    null,
                    null,
                    ContainerType.project.getModelClass().getName(),
                    Lists.newArrayList(1L),
                    null);

    Map<Long, Collection<FileAnnotationData>> result =
        annotationService.listFilesAttachedToContainer(
            ContainerType.project.getModelClass(), 1L);

    assertNotNull(result, "Non-null results expected");
    assertTrue(result.isEmpty(), "Empty results expected");

    sessionMock.assertInvoked().getMetadataService();
    metadataPrxMock.assertInvoked().loadSpecifiedAnnotationsLinkedTo(
                    FileAnnotation.class.getName(),
                    null,
                    null,
                    ContainerType.project.getModelClass().getName(),
                    Lists.newArrayList(1L),
                    null);
}
 

import omero.model.FileAnnotation; //导入依赖的package包/类
/**
 * Gets all annotations existing in all projects from OMERO server.
 * 
 * @param entry Object of class ServiceFactoryPrx.
 * @return Returns a list of all all annotations contain in all projects from OMERO server.
 * @throws ServerError root server exception
 */
private List<Annotation> loadAllAnnotations(ServiceFactoryPrx entry) throws ServerError {
    long userId = entry.getAdminService().getEventContext().userId;
    List<String> nsToInclude = new ArrayList<String>();
    List<String> nsToExclude = new ArrayList<String>();
    ParametersI param = new ParametersI();
    param.exp(omero.rtypes.rlong(userId)); 
    IMetadataPrx proxy = entry.getMetadataService();
    // retrieve all annotations
    List<Annotation> annotations = proxy.loadSpecifiedAnnotations(FileAnnotation.class.getName(), nsToInclude, nsToExclude, param);
    return annotations;
}
 

import omero.model.FileAnnotation; //导入依赖的package包/类
/**
 * {@inheritDoc}
 */
@Override
@SuppressWarnings("unchecked")
public Map<Long, Collection<FileAnnotationData>> listFilesAttachedToContainer(
        Class<? extends IObject> containerClass,
        Long containerId) throws ServerError {

    Check.notNull(containerId, "containerId");
    Check.notNull(containerClass, "containerClass");

    Map<Long, Collection<FileAnnotationData>> result = Collections.emptyMap();

    Map<Long, List<Annotation>> fileAnnotationsLinkedToContainers =
        getSession().getMetadataService().loadSpecifiedAnnotationsLinkedTo(
                    FileAnnotation.class.getName(),
                    null,
                    null,
                    containerClass.getName(),
                    Lists.newArrayList(containerId),
                    null);

    if (null != fileAnnotationsLinkedToContainers) {

        result = DataObject.asPojos(fileAnnotationsLinkedToContainers);

    }

    log.debug("fileAnnotationsLinkedToContainers: id={} type={} list={}",
               containerId, containerClass.getName(), result);

    return result;
}
 

import omero.model.FileAnnotation; //导入依赖的package包/类
@Test
public void listFilesAttachedToContainerShouldReturnEmptyResultWhenNoFileFound() throws ServerError {
    Map<Long, Collection<FileAnnotationData>> expected = Collections.emptyMap();

    metadataPrxMock.returns(expected).loadSpecifiedAnnotationsLinkedTo(
                    FileAnnotation.class.getName(),
                    null,
                    null,
                    ContainerType.project.getModelClass().getName(),
                    Lists.newArrayList(1L),
                    null);

    Map<Long, Collection<FileAnnotationData>> result =
        annotationService.listFilesAttachedToContainer(
            ContainerType.project.getModelClass(), 1L);

    assertNotNull(result, "Non-null results expected");
    assertTrue(result.isEmpty(), "Empty results expected");

    sessionMock.assertInvoked().getMetadataService();
    metadataPrxMock.assertInvoked().loadSpecifiedAnnotationsLinkedTo(
                    FileAnnotation.class.getName(),
                    null,
                    null,
                    ContainerType.project.getModelClass().getName(),
                    Lists.newArrayList(1L),
                    null);
}
 

import omero.model.FileAnnotation; //导入依赖的package包/类
@Test
public void listFilesAttachedToContainer() throws ServerError {
    // fixture
    OriginalFileI originalFile = new OriginalFileI();
    originalFile.setPath(omero.rtypes.rstring("original_file.csv"));
    FileAnnotation fileAnnotation = new FileAnnotationI();
    fileAnnotation.setFile(originalFile);

    Map<Long, Collection<FileAnnotation>> fixture = Maps.newHashMap();
    fixture.put(1L, Lists.newArrayList(fileAnnotation));

    metadataPrxMock.returns(fixture).loadSpecifiedAnnotationsLinkedTo(
                    FileAnnotation.class.getName(),
                    null,
                    null,
                    ContainerType.project.getModelClass().getName(),
                    Lists.newArrayList(1L),
                    null);

    Map<Long, Collection<FileAnnotationData>> result =
        annotationService.listFilesAttachedToContainer(
            ContainerType.project.getModelClass(), 1L);

    assertNotNull(result, "Non-null results expected");
    assertEquals(result.size(), 1, "1 result expected");

    Collection<FileAnnotationData> values = result.get(1L);
    FileAnnotationData pojo = getOnlyElement(values);
    assertEquals(pojo.getContentAsString(), "original_file.csv", "Wrong annotation name");

    sessionMock.assertInvoked().getMetadataService();
    metadataPrxMock.assertInvoked().loadSpecifiedAnnotationsLinkedTo(
                    FileAnnotation.class.getName(),
                    null,
                    null,
                    ContainerType.project.getModelClass().getName(),
                    Lists.newArrayList(1L),
                    null);
}
 

import omero.model.FileAnnotation; //导入依赖的package包/类
/**
 * Gets all attached files in all projects from OMERO server.
 * 
 * @param entry Object of class ServiceFactoryPrx.
 * @param annotations Object of class ServiceFactoryPrx.
 * @param INC Integer value represents the length of the byte stream.
 * @throws ServerError root server exception.
 * @throws FileNotFoundException
 * @throws IOException 
 */
private File readAllAttachedFiles(ServiceFactoryPrx entry, List<Annotation> annotations, int INC) throws ServerError, FileNotFoundException, IOException {
    Iterator<Annotation> j = annotations.iterator();
    Annotation annotation;
    FileAnnotationData fa;
    RawFileStorePrx store = null;
    
    String tempDirectory = System.getProperty("java.io.tmpdir");
    String downloadFolderName = "VizardousOmeroDownloads";
    
    downloadFolder = new File(tempDirectory + File.separator + downloadFolderName);
    
    if (!downloadFolder.exists()) {
    	downloadFolder.mkdirs(); // Create directory if it doesn't exist
    } else {
    	// TODO Buggy
    	downloadFolder.deleteOnExit(); // Delete folder when VM terminates
    }
    
    while (j.hasNext()) {
        annotation = j.next();
        if ( annotation instanceof FileAnnotation ) {
            fa = new FileAnnotationData((FileAnnotation) annotation);
            if (!fa.getFileFormat().equals(FileAnnotationData.XML)) {
            	continue;
            }
            
            // Set location for files
            File file = new File(downloadFolder, fa.getFileName());
            
            // Create file if it does not exist                
            if (!file.createNewFile()) {
            	continue; // Don't open streams if it already exists
            } else {
            	file.deleteOnExit(); // Delete the files when VM terminates
            }                
            
            FileOutputStream stream = new FileOutputStream(file);
            store   = entry.createRawFileStore();
            store.setFileId(fa.getFileID());
            int offset = 0;
            long size = fa.getFileSize();
            try {
                for (offset = 0; (offset+INC) < size;) {
                    stream.write(store.read(offset, INC));
                    offset += INC;
                }
            } finally {
                stream.write(store.read(offset, (int) (size-offset)));
                stream.close();
            }
        }
    }
    store.close();
    
    return downloadFolder;
}