added keep dots to pcr.seqs. fixed pre.cluster name file name when group option is...

[mothur.git] / preclustercommand.cpp

diff --git a/preclustercommand.cpp b/preclustercommand.cpp
index 32080870d4be38de900e5b2b881c6d360faebc32..f2fbc80088b1adf2927ee78d5b1e02fbf9691cb1 100644 (file)
--- a/preclustercommand.cpp
+++ b/preclustercommand.cpp
@@ -217,17 +217,19 @@ int PreClusterCommand::execute(){
                        m->mothurOutEndLine(); 
                        m->mothurOut("/******************************************/"); m->mothurOutEndLine(); 
                        m->mothurOut("Running command: unique.seqs(" + inputString + ")"); m->mothurOutEndLine(); 
-                       
+                       m->mothurCalling = true;
+            
                        Command* uniqueCommand = new DeconvoluteCommand(inputString);
                        uniqueCommand->execute();
                        
                        map<string, vector<string> > filenames = uniqueCommand->getOutputFiles();
                        
                        delete uniqueCommand;
-                       
+                       m->mothurCalling = false;
                        m->mothurOut("/******************************************/"); m->mothurOutEndLine(); 
                        
                        m->renameFile(filenames["fasta"][0], newFastaFile);
+            m->renameFile(filenames["name"][0], newNamesFile);
                        
                        m->mothurOut("It took " + toString(time(NULL) - start) + " secs to run pre.cluster."); m->mothurOutEndLine();