X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Frenderer%2Fseqfeatures%2FFeatureRenderer.java;h=9e0089f98cbdfd2ef9d6bf221a90f1b782036a2f;hb=b9867dd3b0aeaa0fcb839b59cadbb1f76309cb5e;hp=07d97d01e5105aa70528c1cdf5c7867cb3c26f4e;hpb=adc06771b3c3eeaac8f54514f00d7c3c692b8844;p=jalview.git

diff --git a/src/jalview/renderer/seqfeatures/FeatureRenderer.java b/src/jalview/renderer/seqfeatures/FeatureRenderer.java
index 07d97d0..9e0089f 100644
--- a/src/jalview/renderer/seqfeatures/FeatureRenderer.java
+++ b/src/jalview/renderer/seqfeatures/FeatureRenderer.java
@@ -330,8 +330,9 @@ public class FeatureRenderer extends FeatureRendererModel
     }
 
     sfSize = lastSequenceFeatures.length;
-    for (String type : renderOrder)
+    for (int renderIndex = 0; renderIndex < renderOrder.length; renderIndex++)
     {
+      String type = renderOrder[renderIndex];
       if (!showFeatureOfType(type))
       {
         continue;
@@ -365,7 +366,8 @@ public class FeatureRenderer extends FeatureRendererModel
         }
 
         Color featureColour = getColour(sequenceFeature);
-        boolean isDisulfideBond = "disulfide bond".equals(sequenceFeature.type);
+        boolean isContactFeature = sequenceFeature.isContactFeature();
+
         if (offscreenRender && offscreenImage == null)
         {
           /*
@@ -375,7 +377,7 @@ public class FeatureRenderer extends FeatureRendererModel
            */
           boolean featureIsAtPosition = sequenceFeature.begin <= start
                   && sequenceFeature.end >= start;
-          if (isDisulfideBond)
+          if (isContactFeature)
           {
             featureIsAtPosition = sequenceFeature.begin == start
                     || sequenceFeature.end == start;
@@ -392,7 +394,7 @@ public class FeatureRenderer extends FeatureRendererModel
 
           }
         }
-        else if (isDisulfideBond)
+        else if (isContactFeature)
         {
           renderFeature(g, seq, seq.findIndex(sequenceFeature.begin) - 1,
                   seq.findIndex(sequenceFeature.begin) - 1, featureColour,