working on current change

[mothur.git] / chimerauchimecommand.cpp

diff --git a/chimerauchimecommand.cpp b/chimerauchimecommand.cpp
index 33b48bd184ba95f1db5e1db2117a32a64254c664..375964c306651e93c07966d464b02cf24acb187c 100644 (file)
--- a/chimerauchimecommand.cpp
+++ b/chimerauchimecommand.cpp
@@ -209,6 +209,8 @@ ChimeraUchimeCommand::ChimeraUchimeCommand(string option)  {
                                                        //erase from file list
                                                        fastaFileNames.erase(fastaFileNames.begin()+i);
                                                        i--;
+                                               }else {
+                                                       m->setFastaFile(fastaFileNames[i]);
                                                }
                                        }
                                }
@@ -283,6 +285,8 @@ ChimeraUchimeCommand::ChimeraUchimeCommand(string option)  {
                                                        //erase from file list
                                                        nameFileNames.erase(nameFileNames.begin()+i);
                                                        i--;
+                                               }else {
+                                                       m->setNameFile(nameFileNames[i]);
                                                }
                                        }
                                }