4 package jalview.ws.seqfetcher;
6 import static org.junit.Assert.*;
8 import java.util.ArrayList;
11 import jalview.datamodel.DBRefSource;
12 import jalview.ws.DBRefFetcher;
13 import jalview.ws.SequenceFetcher;
14 import jalview.ws.dbsources.das.api.jalviewSourceI;
16 import org.junit.AfterClass;
17 import org.junit.BeforeClass;
18 import org.junit.Test;
24 public class DbRefFetcherTest
28 * @throws java.lang.Exception
31 public static void setUpBeforeClass() throws Exception
36 * @throws java.lang.Exception
39 public static void tearDownAfterClass() throws Exception
44 public void testStandardProtDbs()
46 String[] defdb = DBRefSource.PROTEINDBS;
47 List<DbSourceProxy> srces = new ArrayList<DbSourceProxy>();
48 for (String ddb : defdb)
50 SequenceFetcher sfetcher= new SequenceFetcher();
51 List<DbSourceProxy> srcesfordb = sfetcher.getSourceProxy(ddb);
53 if (srcesfordb != null)
55 srces.addAll(srcesfordb);
58 DbSourceProxy uniprot=null;
60 // append the selected sequence sources to the default dbs
61 for (DbSourceProxy s:srces)
63 if (s.getDbSource().equalsIgnoreCase(DBRefSource.UNIPROT))
68 if (s instanceof jalview.ws.dbsources.Uniprot)
75 assertTrue("Failed to find Uniprot source as first source amongst "+srces.size()+" sources (source was at position "+i+")", uniprot!=null && i<2);