Merge branch 'develop' into merge/JAL-3127

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

diff --git a/test/jalview/schemes/ColourSchemesTest.java b/test/jalview/schemes/ColourSchemesTest.java
index 4618ed7..5db3743 100644 (file)
--- a/test/jalview/schemes/ColourSchemesTest.java
+++ b/test/jalview/schemes/ColourSchemesTest.java
@@ -5,6 +5,7 @@ import static org.testng.Assert.assertFalse;
 import static org.testng.Assert.assertSame;
 import static org.testng.Assert.assertTrue;
 
+import jalview.api.AlignViewportI;
 import jalview.bin.Cache;
 import jalview.bin.Jalview;
 import jalview.datamodel.AnnotatedCollectionI;
@@ -54,8 +55,8 @@ public class ColourSchemesTest
     }
 
     @Override
-    public ColourSchemeI getInstance(AnnotatedCollectionI sg,
-            Map<SequenceI, SequenceCollectionI> hiddenRepSequences)
+    public ColourSchemeI getInstance(AlignViewportI view,
+            AnnotatedCollectionI sg)
     {
       final ColourSchemeI cs1 = ColourSchemes.getInstance()
               .getColourScheme(JalviewColourScheme.Taylor.toString(),
@@ -144,10 +145,10 @@ public class ColourSchemesTest
     }
 
     @Override
-    public ColourSchemeI getInstance(AnnotatedCollectionI sg,
-            Map<SequenceI, SequenceCollectionI> hiddenRepSequences)
+    public ColourSchemeI getInstance(AlignViewportI view,
+            AnnotatedCollectionI sg)
     {
-      return new MyClustal(sg,              hiddenRepSequences);
+      return new MyClustal(sg, view.getHiddenRepSequences());
     }
 
     @Override
@@ -228,9 +229,9 @@ public class ColourSchemesTest
      * set and check Taylor colours
      */
     af.changeColour_actionPerformed(JalviewColourScheme.Taylor.toString());
-    Color taylor1 = sr.getResidueBoxColour(seq, 88); // E 255,0,102
-    Color taylor2 = sr.getResidueBoxColour(seq, 89); // A 204,255,0
-    Color taylor3 = sr.getResidueBoxColour(seq, 90); // G 255,153,0
+    Color taylor1 = sr.getResidueColour(seq, 88, null); // E 255,0,102
+    Color taylor2 = sr.getResidueColour(seq, 89, null); // A 204,255,0
+    Color taylor3 = sr.getResidueColour(seq, 90, null); // G 255,153,0
     assertEquals(taylor1, new Color(255, 0, 102));
     assertEquals(taylor2, new Color(204, 255, 0));
     assertEquals(taylor3, new Color(255, 153, 0));
@@ -239,9 +240,9 @@ public class ColourSchemesTest
      * set and check Zappo colours
      */
     af.changeColour_actionPerformed(JalviewColourScheme.Zappo.toString());
-    Color zappo1 = sr.getResidueBoxColour(seq, 88); // E red
-    Color zappo2 = sr.getResidueBoxColour(seq, 89); // A pink
-    Color zappo3 = sr.getResidueBoxColour(seq, 90); // G magenta
+    Color zappo1 = sr.getResidueColour(seq, 88, null); // E red
+    Color zappo2 = sr.getResidueColour(seq, 89, null); // A pink
+    Color zappo3 = sr.getResidueColour(seq, 90, null); // G magenta
     assertEquals(zappo1, Color.red);
     assertEquals(zappo2, Color.pink);
     assertEquals(zappo3, Color.magenta);
@@ -250,9 +251,9 @@ public class ColourSchemesTest
      * set 'stripy' colours - odd columns are Taylor and even are Zappo 
      */
     af.changeColour_actionPerformed("stripy");
-    Color stripy1 = sr.getResidueBoxColour(seq, 88);
-    Color stripy2 = sr.getResidueBoxColour(seq, 89);
-    Color stripy3 = sr.getResidueBoxColour(seq, 90);
+    Color stripy1 = sr.getResidueColour(seq, 88, null);
+    Color stripy2 = sr.getResidueColour(seq, 89, null);
+    Color stripy3 = sr.getResidueColour(seq, 90, null);
     assertEquals(stripy1, zappo1);
     assertEquals(stripy2, taylor2);
     assertEquals(stripy3, zappo3);
@@ -261,9 +262,9 @@ public class ColourSchemesTest
      * set and check Clustal colours
      */
     af.changeColour_actionPerformed(JalviewColourScheme.Clustal.toString());
-    Color clustal1 = sr.getResidueBoxColour(seq, 88);
-    Color clustal2 = sr.getResidueBoxColour(seq, 89);
-    Color clustal3 = sr.getResidueBoxColour(seq, 90);
+    Color clustal1 = sr.getResidueColour(seq, 88, null);
+    Color clustal2 = sr.getResidueColour(seq, 89, null);
+    Color clustal3 = sr.getResidueColour(seq, 90, null);
     assertEquals(clustal1, ClustalColour.MAGENTA.colour);
     assertEquals(clustal2, ClustalColour.BLUE.colour);
     assertEquals(clustal3, ClustalColour.ORANGE.colour);
@@ -272,9 +273,9 @@ public class ColourSchemesTest
      * set 'MyClustal' colours - uses AWT colour equivalents
      */
     af.changeColour_actionPerformed("MyClustal");
-    Color myclustal1 = sr.getResidueBoxColour(seq, 88);
-    Color myclustal2 = sr.getResidueBoxColour(seq, 89);
-    Color myclustal3 = sr.getResidueBoxColour(seq, 90);
+    Color myclustal1 = sr.getResidueColour(seq, 88, null);
+    Color myclustal2 = sr.getResidueColour(seq, 89, null);
+    Color myclustal3 = sr.getResidueColour(seq, 90, null);
     assertEquals(myclustal1, Color.MAGENTA);
     assertEquals(myclustal2, Color.BLUE);
     assertEquals(myclustal3, Color.ORANGE);