/* @see loci.formats.FormatReader#initFile(String) */
protected void initFile(String id) throws FormatException, IOException {
super.initFile(id);
reader = new ImageReader();
reader.setMetadataOptions(getMetadataOptions());
reader.setMetadataFiltered(isMetadataFiltered());
reader.setOriginalMetadataPopulated(isOriginalMetadataPopulated());
reader.setNormalized(isNormalized());
reader.setMetadataStore(getMetadataStore());
// NB: We need a raw handle on the ZIP data itself, not a ZipHandle.
IRandomAccess rawHandle = Location.getHandle(id, false, false);
in = new RandomAccessInputStream(rawHandle, id);
ZipInputStream zip = new ZipInputStream(in);
while (true) {
ZipEntry ze = zip.getNextEntry();
if (ze == null) break;
ZipHandle handle = new ZipHandle(id, ze);
Location.mapFile(ze.getName(), handle);
mappedFiles.add(ze.getName());
}
ZipHandle base = new ZipHandle(id);
reader.setId(base.getEntryName());
metadataStore = reader.getMetadataStore();
core = reader.getCoreMetadata();
metadata = reader.getGlobalMetadata();
base.close();
}
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);
}