X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=test%2Fjalview%2Fcontroller%2FAlignViewControllerTest.java;fp=test%2Fjalview%2Fcontroller%2FAlignViewControllerTest.java;h=d7f7acbfe5fe5bfc653e9c24452519af8b283f7d;hb=095f0d92cb343875bd0f76f833c1eaa8614c22cd;hp=7fd89655f7f7a8b578e7b60973c08c3b65ba0cf4;hpb=fbc92d8f171f75002890bfa0ea1f436f7125d3b5;p=jalview.git

diff --git a/test/jalview/controller/AlignViewControllerTest.java b/test/jalview/controller/AlignViewControllerTest.java
index 7fd8965..d7f7acb 100644
--- a/test/jalview/controller/AlignViewControllerTest.java
+++ b/test/jalview/controller/AlignViewControllerTest.java
@@ -53,6 +53,9 @@ public class AlignViewControllerTest
             null));
     seq3.addSequenceFeature(new SequenceFeature("Metal", "desc", 11, 15,
             0f, null));
+    // disulfide bond is a 'contact feature' - only select its 'start' and 'end'
+    seq3.addSequenceFeature(new SequenceFeature("disulfide bond", "desc", 8, 12,
+            0f, null));
 
     /*
      * select the first three columns --> Metal in seq1 2-3
@@ -107,6 +110,30 @@ public class AlignViewControllerTest
     assertEquals(0, bs.cardinality());
 
     /*
+     * columns 9-11 should not match disulfide bond at 8/12
+     */
+    sg.setStartRes(8);
+    sg.setEndRes(10);
+    bs.clear();
+    seqCount = AlignViewController.findColumnsWithFeature("disulfide bond",
+            sg, bs);
+    assertEquals(0, seqCount);
+    assertEquals(0, bs.cardinality());
+
+    /*
+     * columns 6-14 should match disulfide bond at 8/12
+     */
+    sg.setStartRes(5);
+    sg.setEndRes(13);
+    bs.clear();
+    seqCount = AlignViewController.findColumnsWithFeature("disulfide bond",
+            sg, bs);
+    assertEquals(1, seqCount);
+    assertEquals(2, bs.cardinality());
+    assertTrue(bs.get(7));
+    assertTrue(bs.get(11));
+
+    /*
      * look for a feature that isn't there
      */
     sg.setStartRes(0);