X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FAppVarnaBinding.java;h=e5196cc9a8759f55e83d8b1562a59e6f2a7c8f1e;hb=7adf677c44c311f7b45b552f8e1022ad8ae97ac4;hp=ee4ef797679b034e96475ebb3234c9823849c194;hpb=3d0101179759ef157b088ea135423cd909512d9f;p=jalview.git

diff --git a/src/jalview/gui/AppVarnaBinding.java b/src/jalview/gui/AppVarnaBinding.java
index ee4ef79..e5196cc 100644
--- a/src/jalview/gui/AppVarnaBinding.java
+++ b/src/jalview/gui/AppVarnaBinding.java
@@ -290,6 +290,8 @@ public class AppVarnaBinding extends JalviewVarnaBinding
                       }
                       _rnaList.add(varnaPanel.getConfig().clone(), r, name,
                               true);
+                      // BH 2018 SwingJS clone of varnaPanel or its config will
+                      // be the object itself, not a clone
                     }
                   }
                 }
@@ -545,7 +547,8 @@ public class AppVarnaBinding extends JalviewVarnaBinding
    */
   public void addStructure(RNA rna)
   {
-    VARNAConfig config = vp.getConfig().clone();
+    VARNAConfig config = vp.getConfig().clone(); // BH 2018 this will NOT be a
+                                                 // clone in SwingJS
     addStructure(rna, config);
   }
 
@@ -571,7 +574,8 @@ public class AppVarnaBinding extends JalviewVarnaBinding
     } catch (ExceptionNAViewAlgorithm e)
     {
       // only throwable for draw mode = 3 NAView
-      System.err.println("Error drawing RNA: " + e.getMessage());
+      jalview.bin.Console
+              .errPrintln("Error drawing RNA: " + e.getMessage());
     }
   }
 }