define window for showing a mussa alignment

[mussa.git] / alg / conserved_path.hpp

diff --git a/alg/conserved_path.hpp b/alg/conserved_path.hpp
index f5f49533846d3ce428781b654012b8447b9740b2..17f1bb7ff053064a8ac8f441fa682f4546d29ece 100644 (file)
--- a/alg/conserved_path.hpp
+++ b/alg/conserved_path.hpp
@@ -36,6 +36,8 @@ struct ConservedPath
    *  that definition may not properly track reverse compliment
    */
   bool nextTo(const ConservedPath& next) const;
+  //! indicate which elements of the path are reversed
+  std::vector<bool> reverseComplimented() const;
 
   //! either number of conserved bases or average entropy
   double score;