JAL-1116 - location where vamsas sync failure occurs

[jalview.git] / src / jalview / api / AlignmentViewPanel.java

diff --git a/src/jalview/api/AlignmentViewPanel.java b/src/jalview/api/AlignmentViewPanel.java
index fcda077..70bb3d6 100644 (file)
--- a/src/jalview/api/AlignmentViewPanel.java
+++ b/src/jalview/api/AlignmentViewPanel.java
@@ -1,6 +1,21 @@
-/**
- * 
- */
+/*******************************************************************************
+ * 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
+ *
+ * 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.
+ *
+ * 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/>.
+ *******************************************************************************/
+
 package jalview.api;
 
 import jalview.datamodel.AlignmentI;
@@ -11,9 +26,20 @@ import jalview.structure.StructureSelectionManager;
  * @author JimP
  *
  */
-public interface AlignmentViewPanel
+public interface AlignmentViewPanel extends OOMHandlerI
 {
 
   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 
+   */
+  
+  void paintAlignment(boolean updateOverview);
+  /**
+   * automatically adjust annotation panel height for new annotation
+   * whilst ensuring the alignment is still visible.
+   */
+  void adjustAnnotationHeight();
 }