Examples with ServiceFactory loci.common.services.ServiceFactory used on opensource projects

Example 21 with ServiceFactory

use of loci.common.services.ServiceFactory in project bioformats by openmicroscopy.

the class Upgrade201004Test method setUp.

@BeforeMethod
public void setUp() throws Exception {
    ServiceFactory sf = new ServiceFactory();
    service = sf.getInstance(OMEXMLService.class);
    InputStream s = Upgrade201004Test.class.getResourceAsStream(XML_FILE);
    byte[] b = new byte[s.available()];
    s.read(b);
    s.close();
    xml = new String(b);
    metadata = service.createOMEXMLMetadata(xml);
    ome = (OME) metadata.getRoot();
}

Example 22 with ServiceFactory

use of loci.common.services.ServiceFactory in project bioformats by openmicroscopy.

the class Upgrade201006Test method setUp.

@BeforeMethod
public void setUp() throws Exception {
    ServiceFactory sf = new ServiceFactory();
    service = sf.getInstance(OMEXMLService.class);
    InputStream s = Upgrade201006Test.class.getResourceAsStream(XML_FILE);
    byte[] b = new byte[s.available()];
    s.read(b);
    s.close();
    xml = new String(b);
    metadata = service.createOMEXMLMetadata(xml);
    ome = (OME) metadata.getRoot();
}

Example 23 with ServiceFactory

use of loci.common.services.ServiceFactory in project bioformats by openmicroscopy.

the class DumpOMEXML method dumpOMEXML.

public static void dumpOMEXML(String path) throws FormatException, IOException, DependencyException, ServiceException {
    ServiceFactory serviceFactory = new ServiceFactory();
    OMEXMLService omexmlService = serviceFactory.getInstance(OMEXMLService.class);
    IMetadata meta = omexmlService.createOMEXMLMetadata();
    ImageReader r = new ImageReader();
    r.setMetadataStore(meta);
    r.setOriginalMetadataPopulated(true);
    r.setId(path);
    r.close();
    String xml = omexmlService.getOMEXML(meta);
    System.out.println(xml);
}

Example 24 with ServiceFactory

use of loci.common.services.ServiceFactory in project bioformats by openmicroscopy.

the class EditImageName method main.

public static void main(String[] args) throws Exception {
    if (args.length != 1) {
        System.out.println("Usage: java EditImageName file");
        return;
    }
    ImageReader reader = new ImageReader();
    // record metadata to OME-XML format
    ServiceFactory factory = new ServiceFactory();
    OMEXMLService service = factory.getInstance(OMEXMLService.class);
    IMetadata omexmlMeta = service.createOMEXMLMetadata();
    reader.setMetadataStore(omexmlMeta);
    String id = args[0];
    System.out.print("Reading metadata ");
    reader.setId(id);
    System.out.println(" [done]");
    // get image name
    String name = omexmlMeta.getImageName(0);
    System.out.println("Initial Image name = " + name);
    // change image name (reverse it)
    char[] arr = name.toCharArray();
    for (int i = 0; i < arr.length / 2; i++) {
        int i2 = arr.length - i - 1;
        char c = arr[i];
        char c2 = arr[i2];
        arr[i] = c2;
        arr[i2] = c;
    }
    name = new String(arr);
    // save altered name back to OME-XML structure
    omexmlMeta.setImageName(name, 0);
    System.out.println("Updated Image name = " + name);
    // output full OME-XML block
    System.out.println("Full OME-XML dump:");
    String xml = service.getOMEXML(omexmlMeta);
    System.out.println(xml);
}

Example 25 with ServiceFactory

use of loci.common.services.ServiceFactory in project bioformats by openmicroscopy.

the class FV1000Reader method initPOIService.

private void initPOIService() throws FormatException, IOException {
    try {
        ServiceFactory factory = new ServiceFactory();
        poi = factory.getInstance(POIService.class);
    } catch (DependencyException de) {
        throw new FormatException("POI library not found", de);
    }
    poi.initialize(Location.getMappedId(getCurrentFile()));
}