fixed bug with dist.shared subsampling. added mode parameter to dist.shared so...

[mothur.git] / chimerauchimecommand.cpp

diff --git a/chimerauchimecommand.cpp b/chimerauchimecommand.cpp
index be0421a73097bc47aa98934ba4ae59a320e02010..b1d996b0f8d971c0fca0124b29031f2c88e5fecb 100644 (file)
--- a/chimerauchimecommand.cpp
+++ b/chimerauchimecommand.cpp
@@ -994,7 +994,8 @@ int ChimeraUchimeCommand::driverGroups(SequenceParser& parser, string outputFNam
                        if (m->control_pressed) { return 0; }
                        
                        //remove file made for uchime
-                       m->mothurRemove(filename);
+                       if (!m->debug) {  m->mothurRemove(filename);  }
+            else { m->mothurOut("[DEBUG]: saving file: " + filename + ".\n"); }
                        
                        //append files
                        m->appendFiles((outputFName+groups[i]), outputFName); m->mothurRemove((outputFName+groups[i]));