X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=test%2Fjalview%2Fdatamodel%2FSequenceTest.java;h=a52f0a2fe654cbb23f54392b054dacf39be0c0b3;hb=6b88cfe942593f7ab1c5c90b99aa3a3e315c94bc;hp=065bed7b37e211c1bcdfc840b2bb7dd5f666d94b;hpb=37de9310bec3501cbc6381e0c3dcb282fcaad812;p=jalview.git

diff --git a/test/jalview/datamodel/SequenceTest.java b/test/jalview/datamodel/SequenceTest.java
index 065bed7..a52f0a2 100644
--- a/test/jalview/datamodel/SequenceTest.java
+++ b/test/jalview/datamodel/SequenceTest.java
@@ -29,20 +29,31 @@ import static org.testng.AssertJUnit.assertTrue;
 import static org.testng.internal.junit.ArrayAsserts.assertArrayEquals;
 
 import jalview.datamodel.PDBEntry.Type;
+import jalview.gui.JvOptionPane;
 import jalview.util.MapList;
 
 import java.io.File;
 import java.util.ArrayList;
 import java.util.Arrays;
+import java.util.BitSet;
 import java.util.List;
 import java.util.Vector;
 
 import org.testng.Assert;
+import org.testng.annotations.BeforeClass;
 import org.testng.annotations.BeforeMethod;
 import org.testng.annotations.Test;
 
 public class SequenceTest
 {
+
+  @BeforeClass(alwaysRun = true)
+  public void setUpJvOptionPane()
+  {
+    JvOptionPane.setInteractiveMode(false);
+    JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
+  }
+
   Sequence seq;
 
   @BeforeMethod(alwaysRun = true)
@@ -64,6 +75,18 @@ public class SequenceTest
     assertEquals("Gap interval 1 end wrong", 4, gapInt.get(0)[1]);
     assertEquals("Gap interval 2 start wrong", 6, gapInt.get(1)[0]);
     assertEquals("Gap interval 2 end wrong", 8, gapInt.get(1)[1]);
+
+    BitSet gapfield = aseq.getInsertionsAsBits();
+    BitSet expectedgaps = new BitSet();
+    expectedgaps.set(2, 5);
+    expectedgaps.set(6, 9);
+
+    assertEquals(6, expectedgaps.cardinality());
+
+    assertEquals("getInsertionsAsBits didn't mark expected number of gaps",
+            6, gapfield.cardinality());
+
+    assertEquals("getInsertionsAsBits not correct.", expectedgaps, gapfield);
   }
 
   @Test(groups = ("Functional"))