/**
* Uses the {@link OMEROMetadataStoreClient} to save all metadata for the current image provided.
*
* @param mij Object hosting metadata to save.
* @return the newly created {@link Pixels} id.
* @throws FormatException if there is an error parsing metadata.
* @throws IOException if there is an error reading the file.
*/
@SuppressWarnings({"unchecked", "rawtypes"})
public Map<String, List<IObject>> importMetadata(MetadataImportJob mij) throws Throwable {
notifyObservers(new ImportEvent.LOADING_IMAGE(shortName, 0, 0, 0));
// 1st we post-process the metadata that we've been given.
notifyObservers(new ImportEvent.BEGIN_POST_PROCESS(0, null, null, null, 0, null));
store.setUserSpecifiedName(userSpecifiedName);
store.setUserSpecifiedDescription(userSpecifiedDescription);
if (userPixels != null && userPixels.length >= 3)
// The array could be empty due to Ice-non-null semantics.
store.setUserSpecifiedPhysicalPixelSizes(userPixels[0], userPixels[1], userPixels[2]);
store.setUserSpecifiedTarget(userSpecifiedTarget);
store.setUserSpecifiedAnnotations(annotationList);
store.postProcess();
notifyObservers(new ImportEvent.END_POST_PROCESS(0, null, userSpecifiedTarget, null, 0, null));
notifyObservers(new ImportEvent.BEGIN_SAVE_TO_DB(0, null, userSpecifiedTarget, null, 0, null));
objects = store.saveToDB(activity);
pixList = (List) objects.get(Pixels.class.getSimpleName());
imageList = (List) objects.get(Image.class.getSimpleName());
plateList = (List) objects.get(Plate.class.getSimpleName());
notifyObservers(new ImportEvent.END_SAVE_TO_DB(0, null, userSpecifiedTarget, null, 0, null));
return objects;
}
