X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=src%2Fjalview%2Fappletgui%2FFeatureRenderer.java;h=47fbb0db946cd166180af6bfa632685f812c134d;hb=6c4bc68ae8b1c5005e79661bb2d8246515cb787d;hp=2e193aab98523b2161f067e7d4dde13489ba4d3b;hpb=74f2c25a0ad46ce7286cca6d976f3592952d36ad;p=jalview.git

diff --git a/src/jalview/appletgui/FeatureRenderer.java b/src/jalview/appletgui/FeatureRenderer.java
index 2e193aa..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;
-    // g2.setComposite(
-     //   AlphaComposite.getInstance(
-     //        AlphaComposite.SRC_OVER, value));
+    /* Graphics2D g2 = (Graphics2D) g;
+     g2.setComposite(
+        AlphaComposite.getInstance(
+             AlphaComposite.SRC_OVER, value));*/
     }
   }