descriptions

[mothur.git] / chimerauchimecommand.cpp

diff --git a/chimerauchimecommand.cpp b/chimerauchimecommand.cpp
index af427d8b6445e39185661bf51782bec1efc54fe6..f757fb956858ff6b244132bd44c0b83d8b9e16db 100644 (file)
--- a/chimerauchimecommand.cpp
+++ b/chimerauchimecommand.cpp
@@ -376,7 +376,7 @@ int ChimeraUchimeCommand::execute(){
                        int start = time(NULL); 
                        string nameFile = "";
                        
-                       if (templatefile == "self") { //you want to run uchime with a refernce template
+                       if (templatefile == "self") { //you want to run uchime with a reference template
                                
                                #ifdef USE_MPI  
                                        int pid; 
@@ -434,7 +434,7 @@ int ChimeraUchimeCommand::execute(){
                                
                                sort(nameMapCount.begin(), nameMapCount.end(), compareSeqPriorityNodes);
                                
-                               string newFasta = fastaFileNames[s] + ".temp";
+                               string newFasta = m->getRootName(fastaFileNames[s]) + "temp";
                                ofstream out;
                                m->openOutputFile(newFasta, out);