safer retrieval of groovy scripts from URLs

[jalview.git] / src / jalview / datamodel / SequenceI.java

diff --git a/src/jalview/datamodel/SequenceI.java b/src/jalview/datamodel/SequenceI.java
index da49a31..d9ffc81 100755 (executable)
--- a/src/jalview/datamodel/SequenceI.java
+++ b/src/jalview/datamodel/SequenceI.java
@@ -174,6 +174,14 @@ public interface SequenceI
   public int[] gapMap();
 
   /**
+   * Returns an int array where indices correspond to each position in
+   * sequence char array and the element value gives the result of findPosition
+   * for that index in the sequence.
+   * 
+   * @return int[SequenceI.getLength()] 
+   */
+  public int[] findPositionMap();
+  /**
    * Delete a range of aligned sequence columns, creating a new dataset sequence if necessary
    * and adjusting start and end positions accordingly.
    *