X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=test%2Fjalview%2Fcontroller%2FAlignViewControllerTest.java;h=3eefadaab87d6e79af743752a6c03e061faa0ba8;hb=585a6abef0a5beef8b5247d9b44105dbf389ba45;hp=d85b68fd0efc4728610b2c5b63fcbcbf1864c63d;hpb=954a2905b057267c6f6c694034972809727ecfbb;p=jalview.git

diff --git a/test/jalview/controller/AlignViewControllerTest.java b/test/jalview/controller/AlignViewControllerTest.java
index d85b68f..3eefada 100644
--- a/test/jalview/controller/AlignViewControllerTest.java
+++ b/test/jalview/controller/AlignViewControllerTest.java
@@ -3,14 +3,12 @@ package jalview.controller;
 import static org.testng.AssertJUnit.assertEquals;
 import static org.testng.AssertJUnit.assertTrue;
 
-import jalview.datamodel.ColumnSelection;
 import jalview.datamodel.Sequence;
 import jalview.datamodel.SequenceFeature;
 import jalview.datamodel.SequenceGroup;
 import jalview.datamodel.SequenceI;
 
 import java.util.BitSet;
-import java.util.List;
 
 import org.testng.annotations.Test;
 
@@ -37,7 +35,7 @@ public class AlignViewControllerTest
             0f, null));
 
     /*
-     * select the first three columns --> seq1 2-3
+     * select the first three columns --> Metal in seq1 2-3
      */
     SequenceGroup sg = new SequenceGroup();
     sg.setStartRes(0); // base 0
@@ -56,7 +54,7 @@ public class AlignViewControllerTest
     assertTrue(bs.get(2));
     
     /*
-     * select the first four columns: seq1 2:4, seq2 4:4
+     * select the first four columns: Metal in seq1 2:4, seq2 4:4
      */
     sg.setEndRes(3);
     bs.clear();
@@ -69,7 +67,7 @@ public class AlignViewControllerTest
     assertTrue(bs.get(3));
 
     /*
-     * select column 11: seq3 only
+     * select column 11: Metal in seq3 only
      */
     sg.setStartRes(10);
     sg.setEndRes(10);
@@ -99,100 +97,4 @@ public class AlignViewControllerTest
     assertEquals(0, seqCount);
     assertEquals(0, bs.cardinality());
   }
-
-  @Test(groups = "Functional")
-  public void testSelectMarkedColumns_invert()
-  {
-    ColumnSelection cs = new ColumnSelection();
-    cs.addElement(5); // this will be cleared
-    BitSet toMark = new BitSet();
-    toMark.set(1);
-    toMark.set(3);
-    toMark.set(6);
-    toMark.set(9);
-
-    /*
-     * inverted selection of {3, 6} should select {4, 5, 7, 8}
-     */
-    assertTrue(AlignViewController.selectMarkedColumns(cs, true, false,
-            false, toMark, 3, 8));
-    List<Integer> selected = cs.getSelected();
-    assertEquals(4, selected.size());
-    assertTrue(selected.contains(4));
-    assertTrue(selected.contains(5));
-    assertTrue(selected.contains(7));
-    assertTrue(selected.contains(8));
-  }
-
-  @Test(groups = "Functional")
-  public void testSelectMarkedColumns()
-  {
-    ColumnSelection cs = new ColumnSelection();
-    cs.addElement(5); // this will be cleared
-    BitSet toMark = new BitSet();
-    toMark.set(1);
-    toMark.set(3);
-    toMark.set(6);
-    toMark.set(9);
-  
-    assertTrue(AlignViewController.selectMarkedColumns(cs, false, false,
-            false, toMark, 3, 8));
-    List<Integer> selected = cs.getSelected();
-    assertEquals(2, selected.size());
-    assertTrue(selected.contains(3));
-    assertTrue(selected.contains(6));
-  }
-
-  @Test(groups = "Functional")
-  public void testSelectMarkedColumns_extend()
-  {
-    ColumnSelection cs = new ColumnSelection();
-    cs.addElement(1);
-    cs.addElement(5);
-    BitSet toMark = new BitSet();
-    toMark.set(1);
-    toMark.set(3);
-    toMark.set(6);
-    toMark.set(9);
-  
-    /*
-     * extending selection of {3, 6} should leave {1, 3, 5, 6} selected
-     */
-    assertTrue(AlignViewController.selectMarkedColumns(cs, false, true,
-            false, toMark, 3, 8));
-    List<Integer> selected = cs.getSelected();
-    assertEquals(4, selected.size());
-    assertTrue(selected.contains(1));
-    assertTrue(selected.contains(3));
-    assertTrue(selected.contains(5));
-    assertTrue(selected.contains(6));
-  }
-
-  @Test(groups = "Functional")
-  public void testSelectMarkedColumns_toggle()
-  {
-    ColumnSelection cs = new ColumnSelection();
-    cs.addElement(1); // outside change range
-    cs.addElement(3);
-    cs.addElement(4);
-    cs.addElement(10); // outside change range
-    BitSet toMark = new BitSet();
-    toMark.set(1);
-    toMark.set(3);
-    toMark.set(6);
-    toMark.set(9);
-  
-    /*
-     * toggling state of {3, 6} should leave {1, 4, 6, 10} selected
-     */
-    assertTrue(AlignViewController.selectMarkedColumns(cs, false, false,
-            true, toMark, 3, 8));
-    List<Integer> selected = cs.getSelected();
-    assertEquals(4, selected.size());
-    assertTrue(selected.contains(1));
-    assertTrue(selected.contains(4));
-    assertTrue(selected.contains(6));
-    assertTrue(selected.contains(10));
-  }
-  // TODO testSelectMarkedColumns with combinations of invert/extend/toggle set
 }