JAL-1078 - extend applet cut'n'paste features/annotation to support t-coffee file

[jalview.git] / src / jalview / javascript / JalviewLiteJsApi.java

diff --git a/src/jalview/javascript/JalviewLiteJsApi.java b/src/jalview/javascript/JalviewLiteJsApi.java
index 19b74ca..f849dc3 100644 (file)
--- a/src/jalview/javascript/JalviewLiteJsApi.java
+++ b/src/jalview/javascript/JalviewLiteJsApi.java
@@ -1,3 +1,20 @@
+/*******************************************************************************
+ * 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.javascript;
 
 import jalview.appletgui.AlignFrame;
@@ -263,6 +280,22 @@ public interface JalviewLiteJsApi
   public abstract void loadAnnotationFrom(AlignFrame alf, String annotation);
 
   /**
+   * parse the given string as a jalview feature or GFF annotation file and optionally enable feature display on the current alignFrame
+   * @param features - gff or features file
+   * @param autoenabledisplay - when true, feature display will be enabled if any features can be parsed from the string.
+   */
+  public abstract void loadFeatures(String features, boolean autoenabledisplay);
+
+  /**
+   * parse the given string as a jalview feature or GFF annotation file and optionally enable feature display on the given alignFrame.
+   * @param alf
+   * @param features - gff or features file
+   * @param autoenabledisplay - when true, feature display will be enabled if any features can be parsed from the string.
+   * @return true if data parsed as features
+   */
+  public abstract boolean loadFeaturesFrom(AlignFrame alf, String features, boolean autoenabledisplay);
+
+  /**
    * get the sequence features in the given format (Jalview or GFF)
    * @param format
    * @return