X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=chimerauchimecommand.cpp;h=f757fb956858ff6b244132bd44c0b83d8b9e16db;hb=b72799e7908e2a3a0cf4f03e796b077a97ace6ac;hp=af427d8b6445e39185661bf51782bec1efc54fe6;hpb=a44542a3c740cf957cff72ac71742f2fe48b0eaf;p=mothur.git

diff --git a/chimerauchimecommand.cpp b/chimerauchimecommand.cpp
index af427d8..f757fb9 100644
--- 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);