Merge branch 'develop' into features/JAL-1793VCF

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

diff --git a/src/jalview/gui/IdPanel.java b/src/jalview/gui/IdPanel.java
index 3cc0ed3..a4f79c2 100755 (executable)
--- a/src/jalview/gui/IdPanel.java
+++ b/src/jalview/gui/IdPanel.java
@@ -138,7 +138,7 @@ public class IdPanel extends JPanel
     }
 
     lastid = seq;
-    alignPanel.paintAlignment(false);
+    alignPanel.paintAlignment(false, false);
   }
 
   /**
@@ -154,7 +154,7 @@ public class IdPanel extends JPanel
       {
         av.getRanges().scrollRight(true);
       }
-      else if (!av.getWrapAlignment())
+      else
       {
         av.getRanges().scrollUp(false);
       }
@@ -165,7 +165,7 @@ public class IdPanel extends JPanel
       {
         av.getRanges().scrollRight(false);
       }
-      else if (!av.getWrapAlignment())
+      else
       {
         av.getRanges().scrollUp(true);
       }
@@ -313,7 +313,7 @@ public class IdPanel extends JPanel
 
     av.isSelectionGroupChanged(true);
 
-    alignPanel.paintAlignment(false);
+    alignPanel.paintAlignment(false, false);
   }
 
   /**
@@ -331,7 +331,8 @@ public class IdPanel extends JPanel
      *  and any non-positional features
      */
     List<String> nlinks = Preferences.sequenceUrlLinks.getLinksForMenu();
-    for (SequenceFeature sf : sq.getFeatures().getNonPositionalFeatures())
+    List<SequenceFeature> features = sq.getFeatures().getNonPositionalFeatures();
+    for (SequenceFeature sf : features)
     {
       if (sf.links != null)
       {
@@ -342,7 +343,7 @@ public class IdPanel extends JPanel
       }
     }
 
-    PopupMenu pop = new PopupMenu(alignPanel, sq, nlinks,
+    PopupMenu pop = new PopupMenu(alignPanel, sq, features,
             Preferences.getGroupURLLinks());
     pop.show(this, e.getX(), e.getY());
   }
@@ -507,7 +508,7 @@ public class IdPanel extends JPanel
           running = false;
         }
 
-        alignPanel.paintAlignment(false);
+        alignPanel.paintAlignment(false, false);
 
         try
         {