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- import ome.formats.OMEROMetadataStoreClient;
- import ome.formats.importer.IObservable;
- import ome.formats.importer.IObserver;
- import ome.formats.importer.ImportCandidates;
- import ome.formats.importer.ImportConfig;
- import ome.formats.importer.ImportContainer;
- import ome.formats.importer.ImportEvent;
- import static ome.formats.importer.ImportEvent.IMPORT_DONE;
- import ome.formats.importer.ImportLibrary;
- import ome.formats.importer.OMEROWrapper;
- import ome.formats.importer.cli.ErrorHandler;
- public class simple_importer {
- public static ImportConfig config(String[] args) throws Exception {
- try {
- final String host = args[0];
- final Integer port = Integer.valueOf(args[1]);
- final String username = args[2];
- final String password = args[3];
- final Long datasetId = Long.valueOf(args[4]);
- final String atLeastOneFile = args[5];
- final ImportConfig config = new ImportConfig();
- config.email.set("");
- config.sendFiles.set(true);
- config.sendReport.set(false);
- config.contOnError.set(false);
- config.debug.set(false);
- config.hostname.set(host);
- config.port.set(port);
- config.username.set(username);
- config.password.set(password);
- config.targetClass.set("omero.model.Dataset");
- config.targetId.set(datasetId);
- return config;
- } catch (Exception e) {
- System.err.println("Usage: simple_importer host port user pass id file1 [file2 ...]");
- System.err.println("---------------------------------------------------------------");
- throw e;
- }
- }
- public static void main(String[] args) throws Exception {
- ImportConfig config = config(args);
- OMEROMetadataStoreClient store = config.createStore();
- final String[] paths = new String[args.length-5];
- System.arraycopy(args, 5, paths, 0, args.length-5);
- try {
- OMEROWrapper reader = new OMEROWrapper(config);
- ImportLibrary library = new ImportLibrary(store, reader);
- ErrorHandler handler = new ErrorHandler(config);
- IObserver status = new IObserver() {
- public void update(IObservable importLibrary, ImportEvent event) {
- if (event instanceof IMPORT_DONE) {
- IMPORT_DONE ev = (IMPORT_DONE) event;
- System.err.println("Imported pixels:");
- for (omero.model.Pixels p : ev.pixels) {
- System.out.println(p.getId().getValue());
- }
- }
- }
- };
- library.addObserver(status);
- ImportCandidates candidates = new ImportCandidates(reader, paths, handler);
- boolean success = library.importCandidates(config, candidates);
- if (!success) {
- System.err.println("Failed");
- }
- } finally {
- store.logout();
- }
- }
- }
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