changed reading of name file to use buffered reads. note the splitAtWhiteSpace functi...

[mothur.git] / aligncommand.h

diff --git a/aligncommand.h b/aligncommand.h
index 5da7a1f7e112b39aebe42c6d5428f010212d383d..d4b7e78ce01ba2b9e6507a2b5a502bae9dbb8b68 100644 (file)
--- a/aligncommand.h
+++ b/aligncommand.h
@@ -1,6 +1,5 @@
 #ifndef ALIGNCOMMAND_H
 #define ALIGNCOMMAND_H
-//test
 /*
  *  aligncommand.h
  *  Mothur
@@ -10,7 +9,6 @@
  *
  */
 
-#include "mothur.h"
 #include "command.hpp"
 #include "database.hpp"
 #include "alignment.hpp"
@@ -57,7 +55,6 @@ private:
        
        int driver(linePair*, string, string, string, string);
        int createProcesses(string, string, string, string);
-       void appendAlignFiles(string, string); 
        void appendReportFiles(string, string);
        
        #ifdef USE_MPI