X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fappletgui%2FFeatureColourChooser.java;h=3c04ccdd18835bb336327f69155d0077864f49c2;hb=0b1c761dfaa8242f122cf868e8897a06ec6eb727;hp=46a67c4bd48a1a0c8b14ac09a27541feab63cab6;hpb=8b9c85b131fbaa1b9b29c489b661089c0ea404bd;p=jalview.git

diff --git a/src/jalview/appletgui/FeatureColourChooser.java b/src/jalview/appletgui/FeatureColourChooser.java
index 46a67c4..3c04ccd 100644
--- a/src/jalview/appletgui/FeatureColourChooser.java
+++ b/src/jalview/appletgui/FeatureColourChooser.java
@@ -20,9 +20,10 @@
  */
 package jalview.appletgui;
 
+import jalview.api.FeatureColourI;
 import jalview.datamodel.GraphLine;
 import jalview.schemes.AnnotationColourGradient;
-import jalview.schemes.GraduatedColor;
+import jalview.schemes.FeatureColour;
 import jalview.util.MessageManager;
 
 import java.awt.Checkbox;
@@ -60,9 +61,9 @@ public class FeatureColourChooser extends Panel implements ActionListener,
 
   // AlignmentPanel ap;
 
-  GraduatedColor cs;
+  FeatureColourI cs;
 
-  Object oldcs;
+  FeatureColourI oldcs;
 
   Hashtable oldgroupColours;
 
@@ -91,29 +92,29 @@ public class FeatureColourChooser extends Panel implements ActionListener,
   {
     this.type = type;
     fr = frenderer;
-    float mm[] = ((float[][]) fr.getMinMax().get(type))[0];
+    float mm[] = fr.getMinMax().get(type)[0];
     min = mm[0];
     max = mm[1];
     oldcs = fr.getFeatureColours().get(type);
-    if (oldcs instanceof GraduatedColor)
+    if (oldcs.isGraduatedColour())
     {
-      cs = new GraduatedColor((GraduatedColor) oldcs, min, max);
+      cs = new FeatureColour((FeatureColour) oldcs, min, max);
     }
     else
     {
       // promote original color to a graduated color
       Color bl = Color.black;
-      if (oldcs instanceof Color)
+      if (oldcs.isSimpleColour())
       {
-        bl = (Color) oldcs;
+        bl = oldcs.getColour();
       }
       // original colour becomes the maximum colour
-      cs = new GraduatedColor(Color.white, bl, mm[0], mm[1]);
+      cs = new FeatureColour(Color.white, bl, mm[0], mm[1]);
     }
-    minColour.setBackground(cs.getMinColor());
-    maxColour.setBackground(cs.getMaxColor());
-    minColour.setForeground(cs.getMinColor());
-    maxColour.setForeground(cs.getMaxColor());
+    minColour.setBackground(cs.getMinColour());
+    maxColour.setBackground(cs.getMaxColour());
+    minColour.setForeground(cs.getMinColour());
+    maxColour.setForeground(cs.getMaxColour());
     colourFromLabel.setState(cs.isColourByLabel());
     adjusting = true;
 
@@ -123,10 +124,8 @@ public class FeatureColourChooser extends Panel implements ActionListener,
     } catch (Exception ex)
     {
     }
-    threshold
-            .select(cs.getThreshType() == AnnotationColourGradient.NO_THRESHOLD ? 0
-                    : cs.getThreshType() == AnnotationColourGradient.ABOVE_THRESHOLD ? 1
-                            : 2);
+    threshold.select(cs.isAboveThreshold() ? 1 : (cs.isBelowThreshold() ? 2
+            : 0));
 
     adjusting = false;
     changeColour();
@@ -259,6 +258,7 @@ public class FeatureColourChooser extends Panel implements ActionListener,
 
   private GraphLine threshline;
 
+  @Override
   public void actionPerformed(ActionEvent evt)
   {
     if (evt.getSource() == thresholdValue)
@@ -286,6 +286,7 @@ public class FeatureColourChooser extends Panel implements ActionListener,
     }
   }
 
+  @Override
   public void itemStateChanged(ItemEvent evt)
   {
     maxColour.setEnabled(!colourFromLabel.getState());
@@ -293,19 +294,20 @@ public class FeatureColourChooser extends Panel implements ActionListener,
     changeColour();
   }
 
+  @Override
   public void adjustmentValueChanged(AdjustmentEvent evt)
   {
     if (!adjusting)
     {
-      thresholdValue.setText(((float) slider.getValue() / 1000f) + "");
+      thresholdValue.setText((slider.getValue() / 1000f) + "");
       valueChanged();
     }
   }
 
   protected void valueChanged()
   {
-    threshline.value = (float) slider.getValue() / 1000f;
-    cs.setThresh(threshline.value);
+    threshline.value = slider.getValue() / 1000f;
+    cs.setThreshold(threshline.value);
     changeColour();
     PaintRefresher.Refresh(this, fr.getViewport().getSequenceSetId());
     // ap.paintAlignment(false);
@@ -369,7 +371,7 @@ public class FeatureColourChooser extends Panel implements ActionListener,
 
     slider.setEnabled(true);
     thresholdValue.setEnabled(true);
-    GraduatedColor acg = new GraduatedColor(minColour.getBackground(),
+    FeatureColour acg = new FeatureColour(minColour.getBackground(),
             maxColour.getBackground(), min, max);
 
     acg.setColourByLabel(colourFromLabel.getState());
@@ -393,7 +395,7 @@ public class FeatureColourChooser extends Panel implements ActionListener,
     if (aboveThreshold != AnnotationColourGradient.NO_THRESHOLD)
     {
       adjusting = true;
-      acg.setThresh(threshline.value);
+      acg.setThreshold(threshline.value);
 
       float range = max * 1000f - min * 1000f;
 
@@ -406,17 +408,17 @@ public class FeatureColourChooser extends Panel implements ActionListener,
       adjusting = false;
     }
 
-    acg.setThreshType(aboveThreshold);
+    acg.setAboveThreshold(true);
     if (thresholdIsMin.getState()
             && aboveThreshold != AnnotationColourGradient.NO_THRESHOLD)
     {
       if (aboveThreshold == AnnotationColourGradient.ABOVE_THRESHOLD)
       {
-        acg = new GraduatedColor(acg, threshline.value, max);
+        acg = new FeatureColour(acg, threshline.value, max);
       }
       else
       {
-        acg = new GraduatedColor(acg, min, threshline.value);
+        acg = new FeatureColour(acg, min, threshline.value);
       }
     }
 
@@ -434,14 +436,17 @@ public class FeatureColourChooser extends Panel implements ActionListener,
 
   }
 
+  @Override
   public void mouseClicked(MouseEvent evt)
   {
   }
 
+  @Override
   public void mousePressed(MouseEvent evt)
   {
   }
 
+  @Override
   public void mouseReleased(MouseEvent evt)
   {
     if (evt.getSource() == minColour || evt.getSource() == maxColour)
@@ -456,10 +461,12 @@ public class FeatureColourChooser extends Panel implements ActionListener,
     // ap.paintAlignment(true);
   }
 
+  @Override
   public void mouseEntered(MouseEvent evt)
   {
   }
 
+  @Override
   public void mouseExited(MouseEvent evt)
   {
   }