JAL-3390 move StructureCommands to utils package

[jalview.git] / src / jalview / ext / rbvi / chimera / JalviewChimeraBinding.java

diff --git a/src/jalview/ext/rbvi/chimera/JalviewChimeraBinding.java b/src/jalview/ext/rbvi/chimera/JalviewChimeraBinding.java
index 381bbea..dd0a75e 100644 (file)
--- a/src/jalview/ext/rbvi/chimera/JalviewChimeraBinding.java
+++ b/src/jalview/ext/rbvi/chimera/JalviewChimeraBinding.java
@@ -40,6 +40,7 @@ import jalview.structure.StructureMappingcommandSet;
 import jalview.structure.StructureSelectionManager;
 import jalview.structures.models.AAStructureBindingModel;
 import jalview.util.MessageManager;
+import jalview.util.StructureCommands;
 
 import java.awt.Color;
 import java.io.File;
@@ -76,8 +77,6 @@ public abstract class JalviewChimeraBinding extends AAStructureBindingModel
 
   private static final String ALPHACARBON = "CA";
 
-  private List<String> chainNames = new ArrayList<>();
-
   private Hashtable<String, String> chainFile = new Hashtable<>();
 
   /*
@@ -673,7 +672,7 @@ public abstract class JalviewChimeraBinding extends AAStructureBindingModel
   protected String[] getColourBySequenceCommands(
           String[] files, AlignmentViewPanel viewPanel)
   {
-    Map<Object, AtomSpecModel> colourMap = buildColoursMap(viewPanel);
+    Map<Object, AtomSpecModel> colourMap = StructureCommands.buildColoursMap(this, viewPanel);
 
     return ChimeraCommands.getColourBySequenceCommand(colourMap, this);
   }
@@ -1021,18 +1020,6 @@ public abstract class JalviewChimeraBinding extends AAStructureBindingModel
   }
 
   /**
-   * Returns a list of chains mapped in this viewer. Note this list is not
-   * currently scoped per structure.
-   * 
-   * @return
-   */
-  @Override
-  public List<String> getChainNames()
-  {
-    return chainNames;
-  }
-
-  /**
    * Send a 'focus' command to Chimera to recentre the visible display
    */
   public void focusView()