X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fappletgui%2FFeatureRenderer.java;h=47fbb0db946cd166180af6bfa632685f812c134d;hb=4756b29312ca78d0975248c65e50157399e6ce39;hp=a24525ee5e2662a9708e85b559efd001efae1201;hpb=bc39ee8df9694f820a8a8bd2430f527b87c07f31;p=jalview.git

diff --git a/src/jalview/appletgui/FeatureRenderer.java b/src/jalview/appletgui/FeatureRenderer.java
index a24525e..47fbb0d 100755
--- a/src/jalview/appletgui/FeatureRenderer.java
+++ b/src/jalview/appletgui/FeatureRenderer.java
@@ -293,7 +293,7 @@ public class FeatureRenderer
 
           for (i = fstart; i <= fend; i++)
           {
-            s = seq.getSequence().charAt(i);
+            s = seq.getCharAt(i);
 
             if (jalview.util.Comparison.isGap(s))
             {
@@ -412,10 +412,10 @@ public class FeatureRenderer
   {
     void setTransparency(Graphics g, float value)
     {
-     Graphics2D g2 = (Graphics2D) g;
+    /* Graphics2D g2 = (Graphics2D) g;
      g2.setComposite(
         AlphaComposite.getInstance(
-             AlphaComposite.SRC_OVER, value));
+             AlphaComposite.SRC_OVER, value));*/
     }
   }