added pairwise.seqs

[mothur.git] / aligncommand.cpp

diff --git a/aligncommand.cpp b/aligncommand.cpp
index 63a117d5064cc8178051017173bacdfd80cb6b3a..7b5365afea037928019e0f94a9ce44d42cfc370a 100644 (file)
--- a/aligncommand.cpp
+++ b/aligncommand.cpp
@@ -750,6 +750,7 @@ int AlignCommand::driverMPI(int start, int num, MPI_File& inMPI, MPI_File& align
                                                        delete nast;
                                                        nast = nast2;
                                                        needToDeleteCopy = true;
+                                                       wasBetter = "\treverse complement produced a better alignment, so mothur used the reverse complement.";
                                                }else{  
                                                        wasBetter = "\treverse complement did NOT produce a better alignment, please check sequence.";
                                                        delete nast2;