added forward and reverse barcodes to trim.seqs to process illumina seqs

[mothur.git] / optionparser.h

diff --git a/optionparser.h b/optionparser.h
index dab14debe385472c35f5f405aa8e12b8b1dabcf0..facd1f85182cc526a6db01d85968d9231afcfc88 100644 (file)
--- a/optionparser.h
+++ b/optionparser.h
@@ -13,7 +13,8 @@
 
 
 #include "mothur.h"
-
+#include "mothurout.h"
+#include "command.hpp"
 
 /***********************************************************************/
 
@@ -22,8 +23,10 @@ public:
        OptionParser(string);
        ~OptionParser() {}
        map<string, string> getParameters();
+       bool getNameFile(vector<string>);
 private:
        map<string, string> parameters;
+       MothurOut* m;
 };
 
 /***********************************************************************/