X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fstructure%2FStructureListener.java;h=e5c5d04f68367cb13d87cbb625466c6c7eaef2c7;hb=4d7f98a6dd54d9863ba449ec79dcd95d25ed863d;hp=5ceefd3f0c04fcc295b99c75ef286bc9f182229f;hpb=797df64fa2a0a30773d0f48f5494d4155e5a8be3;p=jalview.git

diff --git a/src/jalview/structure/StructureListener.java b/src/jalview/structure/StructureListener.java
index 5ceefd3..e5c5d04 100644
--- a/src/jalview/structure/StructureListener.java
+++ b/src/jalview/structure/StructureListener.java
@@ -1,68 +1,69 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
- * Copyright (C) 2011 J Procter, AM Waterhouse, J Engelhardt, LM Lui, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
  * 
  * This file is part of Jalview.
  * 
  * Jalview is free software: you can redistribute it and/or
  * modify it under the terms of the GNU General Public License 
- * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
- * 
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *  
  * Jalview is distributed in the hope that it will be useful, but 
  * WITHOUT ANY WARRANTY; without even the implied warranty 
  * of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
  * PURPOSE.  See the GNU General Public License for more details.
  * 
- * You should have received a copy of the GNU General Public License along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
  */
 package jalview.structure;
 
+import jalview.datamodel.SequenceI;
+
+import java.util.List;
+
 public interface StructureListener
 {
   /**
-   * 
-   * @return list of structure files (unique IDs/filenames) that this listener handles messages for, or null if generic listener (only used by removeListener method)
+   * Returns a list of structure files (unique IDs/filenames) that this listener
+   * handles messages for, or null if generic listener (only used by
+   * removeListener method)
    */
   public String[] getPdbFile();
 
   /**
-   * NOT A LISTENER METHOD!
-   * called by structure viewer when the given atom/structure has been moused over. Typically, implementors call StructureSelectionManager.mouseOverStructure 
-   * @param atomIndex
-   * @param strInfo
-   */
-  public void mouseOverStructure(int atomIndex, String strInfo);
-
-  /**
-   * called by StructureSelectionManager to inform viewer to highlight given atomspec
-   * @param atomIndex
-   * @param pdbResNum
-   * @param chain
-   * @param pdbId
+   * Called by StructureSelectionManager to inform viewer to highlight given
+   * atom positions
+   * 
+   * @param atoms
    */
-  public void highlightAtom(int atomIndex, int pdbResNum, String chain,
-          String pdbId);
+  public void highlightAtoms(List<AtomSpec> atoms);
 
   /**
-   * called by StructureSelectionManager when the colours of a sequence associated with a structure have changed.
-   * @param source (untyped) usually an alignPanel
+   * Called by StructureSelectionManager when the colours of a sequence
+   * associated with a structure have changed.
+   * 
+   * @param source
+   *          (untyped) usually an alignPanel
    */
   public void updateColours(Object source);
 
   /**
-   * called by Jalview to get the colour for the given atomspec
-   * @param atomIndex
-   * @param pdbResNum
-   * @param chain
-   * @param pdbId
-   * @return
+   * Called by structureSelectionManager to instruct implementor to release any
+   * direct references it may hold to the given object (typically, these are
+   * Jalview alignment panels).
+   * 
+   * @param svl
    */
-  public java.awt.Color getColour(int atomIndex, int pdbResNum,
-          String chain, String pdbId);
+  public void releaseReferences(Object svl);
 
   /**
-   * called by structureSelectionManager to instruct implementor to release any direct references it may hold to the given object (typically, these are Jalview alignment panels).
-   * @param svl
+   * Answers true if this listener is interested in the given sequence
+   * 
+   * @param seq
+   * @return
    */
-  public void releaseReferences(Object svl);
+  public boolean isListeningFor(SequenceI seq);
 }