fixed bug with trim.flows that was adding flow files names to the .flow.files file...

[mothur.git] / engine.cpp

diff --git a/engine.cpp b/engine.cpp
index af88e4f143924e5938740b52d4e76dbcd641f910..a80eba4292f8ca32abb9a612cd7ef3cb7f8226a4 100644 (file)
--- a/engine.cpp
+++ b/engine.cpp
@@ -180,8 +180,8 @@ bool InteractEngine::getInput(){
                                        #endif
                                        //executes valid command
                                        mout->runParse = true;
-                                       mout->Groups.clear();
-                                       mout->namesOfGroups.clear();
+                                       mout->clearGroups();
+                                       mout->clearAllGroups();
                                        mout->Treenames.clear();
                                        mout->names.clear();
                                        mout->saveNextLabel = "";
@@ -364,8 +364,8 @@ bool BatchEngine::getInput(){
                                        #endif
                                        //executes valid command
                                        mout->runParse = true;
-                                       mout->Groups.clear();
-                                       mout->namesOfGroups.clear();
+                                       mout->clearGroups();
+                                       mout->clearAllGroups();
                                        mout->Treenames.clear();
                                        mout->names.clear();
                                        mout->saveNextLabel = "";
@@ -531,8 +531,8 @@ bool ScriptEngine::getInput(){
                                        #endif
                                        //executes valid command
                                        mout->runParse = true;
-                                       mout->Groups.clear();
-                                       mout->namesOfGroups.clear();
+                                       mout->clearGroups();
+                                       mout->clearAllGroups();
                                        mout->Treenames.clear();
                                        mout->names.clear();
                                        mout->saveNextLabel = "";