test/jalview/ext/ensembl/EnsemblProteinTest.java

   1 package jalview.ext.ensembl;
   2
   3 import static org.testng.AssertJUnit.assertEquals;
   4
   5 import org.testng.Assert;
   6 import org.testng.annotations.Test;
   7
   8 public class EnsemblProteinTest
   9 {
  10
  11   @Test(groups = "Functional")
  12   public void testIsValidReference() throws Exception
  13   {
  14     EnsemblSequenceFetcher esq = new EnsemblProtein();
  15     Assert.assertTrue(esq.isValidReference("CCDS5863.1"));
  16     Assert.assertTrue(esq.isValidReference("ENSP00000288602"));
  17     Assert.assertFalse(esq.isValidReference("ENST00000288602"));
  18     Assert.assertFalse(esq.isValidReference("ENSG00000288602"));
  19   }
  20
  21   @Test(groups = "Functional")
  22   public void testGetAccesionIdFromQuery() throws Exception
  23   {
  24     EnsemblSequenceFetcher esq = new EnsemblProtein();
  25     assertEquals("ENSP00000288602",
  26             esq.getAccessionIdFromQuery("ENSP00000288602"));
  27     assertEquals("ENSMUSP00000288602",
  28             esq.getAccessionIdFromQuery("ENSMUSP00000288602"));
  29
  30     // ENST converted to ENSP
  31     assertEquals("ENSP00000288602",
  32             esq.getAccessionIdFromQuery("ENST00000288602"));
  33     assertEquals("ENSMUSP00000288602",
  34             esq.getAccessionIdFromQuery("ENSMUST00000288602"));
  35
  36     // with valid separator:
  37     assertEquals("ENSP00000288604",
  38             esq.getAccessionIdFromQuery("ENSP00000288604 ENSP00000288602"));
  39
  40     // with wrong separator:
  41     assertEquals("ENSP00000288604,ENSP00000288602",
  42             esq.getAccessionIdFromQuery("ENSP00000288604,ENSP00000288602"));
  43   }
  44
  45 }