JAL-2253 pull up constant, additional unit test

[jalview.git] / test / jalview / ext / ensembl / EnsemblGeneTest.java

diff --git a/test/jalview/ext/ensembl/EnsemblGeneTest.java b/test/jalview/ext/ensembl/EnsemblGeneTest.java
index a8c491c..5920b89 100644 (file)
--- a/test/jalview/ext/ensembl/EnsemblGeneTest.java
+++ b/test/jalview/ext/ensembl/EnsemblGeneTest.java
@@ -296,4 +296,28 @@ public class EnsemblGeneTest
     assertEquals(-1, fc.compare("coding_exon", "feature_variant"));
     assertEquals(1f, fc.getTransparency());
   }
+
+  @Test(groups = "Network")
+  public void testGetGeneIds()
+  {
+    /*
+     * ENSG00000158828 gene id PINK1 human
+     * ENST00000321556 transcript for the same gene - should not be duplicated
+     * P30419 Uniprot identifier for ENSG00000136448
+     * ENST00000592782 transcript for Uniprot gene - should not be duplicated
+     * BRAF - gene name resolvabe (at time of writing) for 6 model species
+     */
+    String ids = "ENSG00000158828 ENST00000321556 P30419 ENST00000592782 BRAF";
+    EnsemblGene testee = new EnsemblGene();
+    List<String> geneIds = testee.getGeneIds(ids);
+    assertEquals(8, geneIds.size());
+    assertTrue(geneIds.contains("ENSG00000158828"));
+    assertTrue(geneIds.contains("ENSG00000136448"));
+    assertTrue(geneIds.contains("ENSG00000157764")); // BRAF human
+    assertTrue(geneIds.contains("ENSMUSG00000002413")); // mouse
+    assertTrue(geneIds.contains("ENSRNOG00000010957")); // rat
+    assertTrue(geneIds.contains("ENSXETG00000004845")); // xenopus
+    assertTrue(geneIds.contains("ENSDARG00000017661")); // zebrafish
+    assertTrue(geneIds.contains("ENSGALG00000012865")); // chicken
+  }
 }