Merge branch 'develop' into Release_2_9_Branch

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

diff --git a/src/jalview/api/ComplexAlignFile.java b/src/jalview/api/ComplexAlignFile.java
index 92243fb..4349382 100644 (file)
--- a/src/jalview/api/ComplexAlignFile.java
+++ b/src/jalview/api/ComplexAlignFile.java
@@ -1,3 +1,23 @@
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9)
+ * Copyright (C) 2015 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.
+ *  
+ * 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/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
 package jalview.api;
 
 import jalview.datamodel.ColumnSelection;
@@ -6,9 +26,8 @@ import jalview.schemes.ColourSchemeI;
 
 /**
  * This interface should be implemented by complex file parser with the ability
- * to store linked data and complex view states in addition to alingment data
+ * to store linked data and complex view states in addition to Alignment data
  * 
- * @author tcnofoegbu
  *
  */
 public interface ComplexAlignFile
@@ -41,4 +60,10 @@ public interface ComplexAlignFile
    */
   public SequenceI[] getHiddenSequences();
 
+  /**
+   * Retrieves displayed features from a complex file parser
+   * 
+   * @return
+   */
+  public FeaturesDisplayedI getDisplayedFeatures();
 }