JAL-3253 one global singleton instance of EnsemblInfo suffices

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

diff --git a/src/jalview/gui/CrossRefAction.java b/src/jalview/gui/CrossRefAction.java
index 2d20ad9..d37cb29 100644 (file)
--- a/src/jalview/gui/CrossRefAction.java
+++ b/src/jalview/gui/CrossRefAction.java
@@ -141,7 +141,7 @@ public class CrossRefAction implements Runnable
        */
       AlignFrame newFrame = new AlignFrame(xrefsAlignment,
               AlignFrame.DEFAULT_WIDTH, AlignFrame.DEFAULT_HEIGHT);
-      if (Cache.getDefault("HIDE_INTRONS", true))
+      if (Cache.getDefault(Preferences.HIDE_INTRONS, true))
       {
         newFrame.hideFeatureColumns(SequenceOntologyI.EXON, false);
       }
@@ -276,7 +276,7 @@ public class CrossRefAction implements Runnable
       return;
     }
     
-    Set<String> ensemblDivisions = EnsemblInfo.getDivisions();
+    Set<String> ensemblDivisions = new EnsemblInfo().getDivisions();
     
     /*
      * first look for direct dbrefs from sequence to Ensembl
@@ -440,7 +440,7 @@ public class CrossRefAction implements Runnable
      * register any new mappings for sequence mouseover etc
      * (will not duplicate any previously registered mappings)
      */
-    Desktop.getInstance().getStructureSelectionManager()
+    Desktop.getStructureSelectionManager()
             .registerMappings(dataset.getCodonFrames());
 
     if (copyAlignment.getHeight() <= 0)