Merge branch 'develop' into patch/JAL-4281_idwidthandannotHeight_in_project

[jalview.git] / test / jalview / schemes / Blosum62ColourSchemeTest.java

diff --git a/test/jalview/schemes/Blosum62ColourSchemeTest.java b/test/jalview/schemes/Blosum62ColourSchemeTest.java
index b3dd165..69bde42 100644 (file)
--- a/test/jalview/schemes/Blosum62ColourSchemeTest.java
+++ b/test/jalview/schemes/Blosum62ColourSchemeTest.java
@@ -1,3 +1,23 @@
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
+ * 
+ * This file is part of Jalview.
+ * 
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License 
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *  
+ * Jalview is distributed in the hope that it will be useful, but 
+ * WITHOUT ANY WARRANTY; without even the implied warranty 
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
+ * PURPOSE.  See the GNU General Public License for more details.
+ * 
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
 package jalview.schemes;
 
 import static org.testng.Assert.assertEquals;
@@ -14,13 +34,14 @@ public class Blosum62ColourSchemeTest
    * <li>white if there is no consensus</li>
    * <li>white if 'residue' is a gap</li>
    * <li>dark blue if residue matches consensus (or joint consensus)</li>
-   * <li>else, total the residue's Blosum score with the consensus residue(s)</li>
+   * <li>else, total the residue's Blosum score with the consensus
+   * residue(s)</li>
    * <ul>
    * <li>if positive, light blue, else white</li>
    * </ul>
    * <ul>
    */
-  @Test
+  @Test(groups = "Functional")
   public void testFindColour()
   {
     ColourSchemeI blosum = new Blosum62ColourScheme();
@@ -29,11 +50,10 @@ public class Blosum62ColourSchemeTest
 
     /*
      * findColour does not use column, sequence or pid score
+     * we assume consensus residue is computed as upper case
      */
     assertEquals(blosum.findColour('A', 0, null, "A", 0f), darkBlue);
     assertEquals(blosum.findColour('a', 0, null, "A", 0f), darkBlue);
-    assertEquals(blosum.findColour('A', 0, null, "a", 0f), darkBlue);
-    assertEquals(blosum.findColour('a', 0, null, "a", 0f), darkBlue);
 
     /*
      * L has a Blosum score of