X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fapi%2FComplexAlignFile.java;fp=src%2Fjalview%2Fapi%2FComplexAlignFile.java;h=2bf2782332923a3212a2db88b794d865a63c0554;hb=9623cea766a766683243235557ad48e6f7659e6a;hp=133a739b8b1fac58ab499c41f3fc791a97ba321f;hpb=6066400ed6b0fe288ebbea82389f59838a534706;p=jalview.git

diff --git a/src/jalview/api/ComplexAlignFile.java b/src/jalview/api/ComplexAlignFile.java
index 133a739..2bf2782 100644
--- a/src/jalview/api/ComplexAlignFile.java
+++ b/src/jalview/api/ComplexAlignFile.java
@@ -1,8 +1,27 @@
+/*
+ * 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.
+ *  
+ * 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;
 import jalview.datamodel.SequenceI;
-import jalview.schemes.ColourSchemeI;
 
 /**
  * This interface should be implemented by complex file parser with the ability
@@ -24,7 +43,7 @@ public interface ComplexAlignFile
    * 
    * @return
    */
-  public ColourSchemeI getColourScheme();
+  public String getGlobalColourScheme();
 
   /**
    * Retrieves the Column selection/hidden column from a complex file parser
@@ -40,4 +59,10 @@ public interface ComplexAlignFile
    */
   public SequenceI[] getHiddenSequences();
 
+  /**
+   * Retrieves displayed features from a complex file parser
+   * 
+   * @return
+   */
+  public FeaturesDisplayedI getDisplayedFeatures();
 }