X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fjavascript%2FMouseOverStructureListener.java;h=e90b9681a13ea6cfe21d5f26138a0be9b5018202;hb=57738a1f3c19b1c3a00bd3ac5108f8cd0af32f99;hp=607193317fb359e82ed041342c5ee71581e1be88;hpb=82b053436b1d354d5b09ab419cac65ca032aea94;p=jalview.git

diff --git a/src/jalview/javascript/MouseOverStructureListener.java b/src/jalview/javascript/MouseOverStructureListener.java
index 6071933..e90b968 100644
--- a/src/jalview/javascript/MouseOverStructureListener.java
+++ b/src/jalview/javascript/MouseOverStructureListener.java
@@ -30,7 +30,6 @@ import jalview.ext.jmol.JmolCommands;
 import jalview.structure.AtomSpec;
 import jalview.structure.StructureListener;
 import jalview.structure.StructureMapping;
-import jalview.structure.StructureMappingcommandSet;
 import jalview.structure.StructureSelectionManager;
 import jalview.util.HttpUtils;
 
@@ -220,21 +219,21 @@ public class MouseOverStructureListener extends JSFunctionExec
 
       // Form a colour command from the given alignment panel for each distinct
       // structure
-      ArrayList<String[]> ccomands = new ArrayList<String[]>();
-      ArrayList<String> pdbfn = new ArrayList<String>();
-      StructureMappingcommandSet[] colcommands = JmolCommands
-              .getColourBySequenceCommand(ssm, modelSet, sequence, sr,
-                      (AlignmentViewPanel) source);
+      ArrayList<String[]> ccomands = new ArrayList<>();
+      ArrayList<String> pdbfn = new ArrayList<>();
+      String[] colcommands = new JmolCommands().colourBySequence(ssm,
+              modelSet, sequence, sr, (AlignmentViewPanel) source);
       if (colcommands == null)
       {
         return;
       }
       int sz = 0;
-      for (jalview.structure.StructureMappingcommandSet ccset : colcommands)
+      // for (jalview.structure.StructureMappingcommandSet ccset : colcommands)
+      for (String command : colcommands)
       {
-        sz += ccset.commands.length;
-        ccomands.add(ccset.commands);
-        pdbfn.add(ccset.mapping);
+        // sz += ccset.commands.length;
+        // ccomands.add(command); // ccset.commands);
+        // pdbfn.add(ccset.mapping);
       }
 
       String mclass, mhandle;