X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fapi%2FAlignmentViewPanel.java;h=9593a5b7aa2019e0c9c32be3dac2900e0372def9;hb=a83adb45bdf9554e270921b4baad94defd314b36;hp=70bb3d65749d7a91ad59631475bd1521851d57ad;hpb=06a78ad135ffd7a9d4bec8164153bedaff0f0ff3;p=jalview.git

diff --git a/src/jalview/api/AlignmentViewPanel.java b/src/jalview/api/AlignmentViewPanel.java
index 70bb3d6..9593a5b 100644
--- a/src/jalview/api/AlignmentViewPanel.java
+++ b/src/jalview/api/AlignmentViewPanel.java
@@ -1,45 +1,73 @@
-/*******************************************************************************
- * 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.api;
 
 import jalview.datamodel.AlignmentI;
 import jalview.structure.StructureSelectionManager;
 
+import java.awt.image.BufferedImage;
+
 /**
  * abstract interface implemented by alignment panels holding an alignment view
+ * 
  * @author JimP
- *
+ * 
  */
 public interface AlignmentViewPanel extends OOMHandlerI
 {
 
+  AlignViewportI getAlignViewport();
+
   AlignmentI getAlignment();
+
   StructureSelectionManager getStructureSelectionManager();
+
   /**
    * repaint the alignment view after a datamodel update.
-   * @param updateOverview - if true, the overview panel will also be updated and repainted 
+   * 
+   * @param updateOverview
+   *          - if true, the overview panel will also be updated and repainted
+   * @param updateStructures
+   *          - if true then any linked structure views will also be updated
    */
-  
-  void paintAlignment(boolean updateOverview);
+  void paintAlignment(boolean updateOverview, boolean updateStructures);
+
   /**
-   * automatically adjust annotation panel height for new annotation
-   * whilst ensuring the alignment is still visible.
+   * automatically adjust annotation panel height for new annotation whilst
+   * ensuring the alignment is still visible.
    */
   void adjustAnnotationHeight();
+
+  FeatureRenderer getFeatureRenderer();
+
+  FeatureRenderer cloneFeatureRenderer();
+
+  /**
+   * 
+   * @return displayed name for the view
+   */
+  String getViewName();
+
+  SequenceRenderer getSequenceRenderer();
+
+  void overviewDone(BufferedImage miniMe);
+
 }