fixed a bug in calculating the # of ambig bases

[mothur.git] / binsequencecommand.h

diff --git a/binsequencecommand.h b/binsequencecommand.h
index 617f5ec7ac98f17f358c383ca424ebd817cb3227..bc2f883fe5f3e232d935780f7660e5a53647b18b 100644 (file)
--- a/binsequencecommand.h
+++ b/binsequencecommand.h
@@ -16,6 +16,7 @@
 #include "listvector.hpp"
 #include "readotu.h"
 #include "fastamap.h"
+#include "groupmap.h"
 
 
 class GlobalData;
@@ -33,11 +34,13 @@ private:
        ReadOTUFile* read;
        InputData* input;
        FastaMap* fasta;
-       string filename, fastafile, namesfile;
+       GroupMap* groupMap;
+       string filename, fastafile, namesfile, groupfile;
        ofstream out;
        ifstream in, inNames;
        
        void readNamesFile();
+       int process(ListVector*, int);
 };
 
 #endif