X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=src%2Fjalview%2Fapi%2FAlignViewControllerI.java;h=a2f22041f9d780adef68297ff121a3992eaed014;hb=4d7f98a6dd54d9863ba449ec79dcd95d25ed863d;hp=b5c077e51dcd68523f2b0f5d2bf5100508c0e8cb;hpb=25aaaa87042b3f507ad4348120df7dd073182759;p=jalview.git

diff --git a/src/jalview/api/AlignViewControllerI.java b/src/jalview/api/AlignViewControllerI.java
index b5c077e..a2f2204 100644
--- a/src/jalview/api/AlignViewControllerI.java
+++ b/src/jalview/api/AlignViewControllerI.java
@@ -1,6 +1,6 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2b1)
- * Copyright (C) 2014 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
  * 
  * This file is part of Jalview.
  * 
@@ -65,15 +65,34 @@ public interface AlignViewControllerI
           boolean extendCurrent, boolean clearColumns, String featureType);
 
   /**
-   * sort the alignment or current selection by average score over the given set of features
-   * @param typ list of feature names or null to use currently displayed features
+   * sort the alignment or current selection by average score over the given set
+   * of features
+   * 
+   * @param typ
+   *          list of feature names or null to use currently displayed features
    */
   void sortAlignmentByFeatureScore(String[] typ);
 
   /**
-   * sort the alignment or current selection by distribution of the given set of features
-   * @param typ list of feature names or null to use currently displayed features
+   * sort the alignment or current selection by distribution of the given set of
+   * features
+   * 
+   * @param typ
+   *          list of feature names or null to use currently displayed features
    */
   void sortAlignmentByFeatureDensity(String[] typ);
 
+  /**
+   * add a features file of some kind to the current view
+   * 
+   * @param file
+   * @param protocol
+   * @param relaxedIdMatching
+   *          if true, try harder to match up IDs with local sequence data
+   * @return true if parsing resulted in something being imported to the view or
+   *         dataset
+   */
+  public boolean parseFeaturesFile(String file, String protocol,
+          boolean relaxedIdMatching);
+
 }