JAL-2110 SequenceI.isProtein method

[jalview.git] / test / jalview / datamodel / SequenceTest.java

diff --git a/test/jalview/datamodel/SequenceTest.java b/test/jalview/datamodel/SequenceTest.java
index 17dfcdc..5c5c5c3 100644 (file)
--- a/test/jalview/datamodel/SequenceTest.java
+++ b/test/jalview/datamodel/SequenceTest.java
@@ -65,6 +65,20 @@ public class SequenceTest
     assertEquals("Gap interval 2 end wrong", 8, gapInt.get(1)[1]);
   }
 
+  @Test(groups = ("Functional"))
+  public void testIsProtein()
+  {
+    // test Protein
+    assertTrue(new Sequence("prot","ASDFASDFASDF").isProtein());
+    // test DNA
+    assertFalse(new Sequence("prot","ACGTACGTACGT").isProtein());
+    // test RNA
+    SequenceI sq = new Sequence("prot","ACGUACGUACGU");
+    assertFalse(sq.isProtein());
+    // change sequence, should trigger an update of cached result
+    sq.setSequence("ASDFASDFADSF");
+    assertTrue(sq.isProtein());
+  }
   @Test(groups = { "Functional" })
   public void testGetAnnotation()
   {
@@ -388,6 +402,20 @@ public class SequenceTest
   }
 
   /**
+   * test createDatasetSequence behaves to doc
+   */
+  @Test(groups = { "Functional" })
+  public void testCreateDatasetSequence()
+  {
+    SequenceI sq = new Sequence("my","ASDASD");
+    assertNull(sq.getDatasetSequence());
+    SequenceI rds = sq.createDatasetSequence();
+    assertNotNull(rds);
+    assertNull(rds.getDatasetSequence());
+    assertEquals(sq.getDatasetSequence(), rds);
+  }
+
+  /**
    * Test for deriveSequence applied to a sequence with a dataset
    */
   @Test(groups = { "Functional" })