JAL-845 SplitFrame for "show product" and after aligning from SplitFrame

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

diff --git a/src/jalview/datamodel/AlignmentI.java b/src/jalview/datamodel/AlignmentI.java
index fe93683..eb396ad 100755 (executable)
--- a/src/jalview/datamodel/AlignmentI.java
+++ b/src/jalview/datamodel/AlignmentI.java
@@ -517,4 +517,13 @@ public interface AlignmentI extends AnnotatedCollectionI
    * @return
    */
   Set<String> getSequenceNames();
+
+  /**
+   * Returns a (possibly empty) alignment whose sequences are aligned to match
+   * the current alignment, as mapped by the given codon mappings.
+   * 
+   * @param codonFrames
+   * @return
+   */
+  AlignmentI getAlignedComplement(Set<AlignedCodonFrame> codonFrames);
 }