JAL-2094 first pass with jalview.api.ColorI interface

[jalview.git] / src / jalview / gui / SequenceRenderer.java

diff --git a/src/jalview/gui/SequenceRenderer.java b/src/jalview/gui/SequenceRenderer.java
index 258a229..f215f9d 100755 (executable)
--- a/src/jalview/gui/SequenceRenderer.java
+++ b/src/jalview/gui/SequenceRenderer.java
@@ -20,10 +20,13 @@
  */
 package jalview.gui;
 
+import jalview.api.ColorI;
 import jalview.api.FeatureRenderer;
 import jalview.datamodel.SequenceGroup;
 import jalview.datamodel.SequenceI;
+import jalview.schemes.Colour;
 import jalview.schemes.ColourSchemeI;
+import jalview.util.ColorUtils;
 
 import java.awt.Color;
 import java.awt.FontMetrics;
@@ -89,7 +92,7 @@ public class SequenceRenderer implements jalview.api.SequenceRenderer
   }
 
   @Override
-  public Color getResidueBoxColour(SequenceI seq, int i)
+  public ColorI getResidueBoxColour(SequenceI seq, int i)
   {
     allGroups = av.getAlignment().findAllGroups(seq);
 
@@ -105,7 +108,7 @@ public class SequenceRenderer implements jalview.api.SequenceRenderer
       getBoxColour(av.getGlobalColourScheme(), seq, i);
     }
 
-    return resBoxColour;
+    return new Colour(resBoxColour);
   }
 
   /**
@@ -119,12 +122,12 @@ public class SequenceRenderer implements jalview.api.SequenceRenderer
    * @return
    */
   @Override
-  public Color getResidueColour(final SequenceI seq, int position,
+  public ColorI getResidueColour(final SequenceI seq, int position,
           FeatureRenderer fr)
   {
     // TODO replace 8 or so code duplications with calls to this method
     // (refactored as needed)
-    Color col = getResidueBoxColour(seq, position);
+    ColorI col = getResidueBoxColour(seq, position);
 
     if (fr != null)
     {
@@ -303,7 +306,7 @@ public class SequenceRenderer implements jalview.api.SequenceRenderer
     {
       end = seq.getLength() - 1;
     }
-    graphics.setColor(av.getTextColour());
+    graphics.setColor(ColorUtils.getColor(av.getTextColour()));
 
     if (monospacedFont && av.getShowText() && allGroups.length == 0
             && !av.getColourText() && av.getThresholdTextColour() == 0)
@@ -330,7 +333,7 @@ public class SequenceRenderer implements jalview.api.SequenceRenderer
       for (int i = start; i <= end; i++)
       {
 
-        graphics.setColor(av.getTextColour());
+        graphics.setColor(ColorUtils.getColor(av.getTextColour()));
         getboxColour = false;
         s = seq.getCharAt(i);
 
@@ -362,13 +365,13 @@ public class SequenceRenderer implements jalview.api.SequenceRenderer
               if (resBoxColour.getRed() + resBoxColour.getBlue()
                       + resBoxColour.getGreen() < currentSequenceGroup.thresholdTextColour)
               {
-                graphics.setColor(currentSequenceGroup.textColour2);
+                graphics.setColor(ColorUtils.getColor(currentSequenceGroup.textColour2));
               }
             }
           }
           else
           {
-            graphics.setColor(currentSequenceGroup.textColour);
+            graphics.setColor(ColorUtils.getColor(currentSequenceGroup.textColour));
           }
           if (!isarep && !isgrep
                   && currentSequenceGroup.getShowNonconserved()) // todo
@@ -412,7 +415,7 @@ public class SequenceRenderer implements jalview.api.SequenceRenderer
             if (resBoxColour.getRed() + resBoxColour.getBlue()
                     + resBoxColour.getGreen() < av.getThresholdTextColour())
             {
-              graphics.setColor(av.getTextColour2());
+              graphics.setColor(ColorUtils.getColor(av.getTextColour2()));
             }
           }
           if (!isarep && av.getShowUnconserved())