JAL-1705 return Ensembl genes for model species for a gene name

[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 1f1a84e..d1c7e2f 100644 (file)
--- a/test/jalview/ext/ensembl/EnsemblGeneTest.java
+++ b/test/jalview/ext/ensembl/EnsemblGeneTest.java
@@ -129,27 +129,35 @@ public class EnsemblGeneTest
     SequenceFeature sf1 = new SequenceFeature("transcript", "", 20000,
             20500, 0f, null);
     sf1.setValue("Parent", "gene:" + geneId);
+    sf1.setValue("transcript_id", "transcript1");
     genomic.addSequenceFeature(sf1);
 
     // transcript sub-type feature
     SequenceFeature sf2 = new SequenceFeature("snRNA", "", 20000,
             20500, 0f, null);
     sf2.setValue("Parent", "gene:" + geneId);
+    sf2.setValue("transcript_id", "transcript2");
     genomic.addSequenceFeature(sf2);
 
     // NMD_transcript_variant treated like transcript in Ensembl
     SequenceFeature sf3 = new SequenceFeature("NMD_transcript_variant", "",
             20000, 20500, 0f, null);
     sf3.setValue("Parent", "gene:" + geneId);
+    sf3.setValue("transcript_id", "transcript3");
     genomic.addSequenceFeature(sf3);
 
     // transcript for a different gene - ignored
     SequenceFeature sf4 = new SequenceFeature("snRNA", "", 20000, 20500,
             0f, null);
     sf4.setValue("Parent", "gene:XYZ");
+    sf4.setValue("transcript_id", "transcript4");
     genomic.addSequenceFeature(sf4);
 
     EnsemblGene testee = new EnsemblGene();
+
+    /*
+     * with no filter
+     */
     List<SequenceFeature> features = testee.getTranscriptFeatures(geneId,
             genomic);
     assertEquals(3, features.size());