Examples with Account org.jbei.ice.storage.model.Account used on opensource projects

Example 66 with Account

use of org.jbei.ice.storage.model.Account in project ice by JBEI.

the class FolderDAOTest method testGetFolderContents.

@Test
public void testGetFolderContents() throws Exception {
    Account account = AccountCreator.createTestAccount("testGetFolderContents", false);
    String email = account.getEmail();
    // create test folder
    Folder folder = createFolderObject("testGetFolderContents");
    folder = dao.create(folder);
    Assert.assertNotNull(folder);
    List<Entry> entries = new ArrayList<>();
    EntryCreator creator = new EntryCreator();
    // create 10 entries
    for (int i = 0; i < 10; i += 1) {
        Part part = new Part();
        part.setName("name" + i);
        part.setOwnerEmail(email);
        part.setAlias("alias" + i);
        part.setShortDescription("short description");
        Entry entry = creator.createEntry(account, part, null);
        entries.add(entry);
    }
    // add entries to folder
    folder = dao.addFolderContents(folder, entries);
    Assert.assertNotNull(folder);
}

Example 67 with Account

use of org.jbei.ice.storage.model.Account in project ice by JBEI.

the class EntryDAOTest method testGet.

@Test
public void testGet() throws Exception {
    Account account = AccountCreator.createTestAccount("testGet", false);
    long id = TestEntryCreator.createTestPart(account.getEmail());
    Entry entry = entryDAO.get(id);
    Assert.assertNotNull(entry);
    Assert.assertEquals(id, entry.getId());
}

Example 68 with Account

use of org.jbei.ice.storage.model.Account in project ice by JBEI.

the class PartSequenceTest method testParseSequence.

@Test
public void testParseSequence() throws Exception {
    Account account = AccountCreator.createTestAccount("PartSequenceTest.testParseSequence", false);
    PartSequence partSequence = new PartSequence(account.getEmail(), EntryType.PART);
    ByteArrayInputStream inputStream = new ByteArrayInputStream(fasta.getBytes());
    SequenceInfo sequenceInfo = partSequence.parseSequenceFile(inputStream, "fasta.fa");
    Assert.assertNotNull(sequenceInfo);
    Assert.assertNotNull(sequenceInfo.getSequence());
}

Example 69 with Account

use of org.jbei.ice.storage.model.Account in project ice by JBEI.

the class SampleServiceTest method testDelete.

@Test
public void testDelete() throws Exception {
    Account account = AccountCreator.createTestAccount("testDelete", false);
    String userId = account.getEmail();
    // ----- CASE #1 -----
    Strain strain1 = TestEntryCreator.createTestStrain(account);
    PartSample partSample1 = new PartSample();
    partSample1.setLabel("testForShelfScheme1");
    // well
    StorageLocation well = new StorageLocation();
    well.setDisplay("well");
    well.setType(SampleType.WELL);
    // box
    StorageLocation box = new StorageLocation();
    box.setDisplay("box");
    box.setType(SampleType.BOX_INDEXED);
    box.setChild(well);
    // shelf
    StorageLocation shelf = new StorageLocation();
    shelf.setDisplay("shelf");
    shelf.setType(SampleType.SHELF);
    shelf.setChild(box);
    partSample1.setLocation(shelf);
    partSample1 = service.createSample(userId, strain1.getRecordId(), partSample1, null);
    Assert.assertNotNull(partSample1);
    // fetch
    List<PartSample> samples1 = service.retrieveEntrySamples(userId, Long.toString(strain1.getId()));
    Assert.assertEquals(1, samples1.size());
    StorageLocation location1 = samples1.get(0).getLocation();
    // delete
    Assert.assertTrue(service.delete(userId, strain1.getId(), samples1.get(0).getId()));
    Assert.assertNull(DAOFactory.getStorageDAO().get(location1.getId()));
    // ----- CASE 2 -----
    Strain strain2 = TestEntryCreator.createTestStrain(account);
    PartSample partSample2 = new PartSample();
    partSample2.setLabel("testForPlateScheme2");
    // tube2
    StorageLocation tube2 = new StorageLocation();
    tube2.setDisplay("tube2");
    tube2.setType(SampleType.TUBE);
    // well
    StorageLocation well2 = new StorageLocation();
    well2.setDisplay("well2");
    well2.setType(SampleType.WELL);
    well2.setChild(tube2);
    // plate2
    StorageLocation plate2 = new StorageLocation();
    plate2.setDisplay("plate2");
    plate2.setType(SampleType.PLATE96);
    plate2.setChild(well2);
    partSample2.setLocation(plate2);
    partSample2 = service.createSample(userId, Long.toString(strain2.getId()), partSample2, null);
    Assert.assertNotNull(partSample2);
    // ----- CASE 3 -----
    PartSample partSample3 = new PartSample();
    partSample3.setLabel("testForPlateScheme3");
    // tube2
    StorageLocation tube3 = new StorageLocation();
    tube3.setDisplay("tube3");
    tube3.setType(SampleType.TUBE);
    // well
    StorageLocation well3 = new StorageLocation();
    well3.setDisplay("well3");
    well3.setType(SampleType.WELL);
    well3.setChild(tube3);
    // plate2
    StorageLocation plate3 = new StorageLocation();
    plate3.setDisplay("plate3");
    plate3.setType(SampleType.PLATE96);
    plate3.setChild(well3);
    partSample3.setLocation(plate3);
    partSample3 = service.createSample(userId, Long.toString(strain2.getId()), partSample3, null);
    Assert.assertNotNull(partSample3);
    // fetch
    List<PartSample> samples3 = service.retrieveEntrySamples(userId, Long.toString(strain2.getId()));
    Assert.assertEquals(2, samples3.size());
    StorageLocation location3 = samples3.get(1).getLocation();
    // delete #2 and #3 consequently
    Assert.assertTrue(service.delete(userId, strain2.getId(), samples3.get(1).getId()));
    Assert.assertNull(DAOFactory.getStorageDAO().get(location3.getId()));
    List<PartSample> samples2 = service.retrieveEntrySamples(userId, Long.toString(strain2.getId()));
    Assert.assertEquals(1, samples2.size());
    StorageLocation location2 = samples2.get(0).getLocation();
    Assert.assertTrue(service.delete(userId, strain2.getId(), samples2.get(0).getId()));
    Assert.assertNull(DAOFactory.getStorageDAO().get(location2.getId()));
    List<PartSample> samplesEmpty = service.retrieveEntrySamples(userId, Long.toString(strain2.getId()));
    Assert.assertEquals(0, samplesEmpty.size());
}

Example 70 with Account

use of org.jbei.ice.storage.model.Account in project ice by JBEI.

the class FolderControllerTest method testGetPublicFolders.

@Test
public void testGetPublicFolders() throws Exception {
    Account account = AccountCreator.createTestAccount("testGetPublicFolders", false);
    Assert.assertNotNull(account);
    String userId = account.getEmail();
    FolderDetails details = new FolderDetails();
    details.setName("test1");
    details = controller.createPersonalFolder(userId, details);
    Assert.assertNotNull(details);
    PermissionsController permissionsController = new PermissionsController();
    AccessPermission accessPermission = new AccessPermission();
    accessPermission.setArticle(AccessPermission.Article.GROUP);
    long publicGroupId = new GroupController().createOrRetrievePublicGroup().getId();
    accessPermission.setArticleId(publicGroupId);
    accessPermission.setType(AccessPermission.Type.READ_FOLDER);
    accessPermission.setTypeId(details.getId());
    permissionsController.addPermission(userId, accessPermission);
    ArrayList<FolderDetails> results = controller.getPublicFolders();
    Assert.assertFalse(results.isEmpty());
    Assert.assertEquals(details.getName(), results.get(0).getName());
}