added classify.shared command and random forest files. added count file to pcr.seqs...

[mothur.git] / subsamplecommand.h

diff --git a/subsamplecommand.h b/subsamplecommand.h
index c746e144119dc4d4c0d45ef10872b1f7c9951129..d1fb1226236dc3842b9ace53536cf95a266f1d5e 100644 (file)
--- a/subsamplecommand.h
+++ b/subsamplecommand.h
@@ -16,6 +16,7 @@
 #include "rabundvector.hpp"
 #include "inputdata.h"
 #include "sequence.hpp"
+#include "counttable.h"
 
 
 class SubSampleCommand : public Command {
@@ -38,13 +39,14 @@ public:
        
 private:       
        bool abort, pickedGroups, allLines, persample;
-       string listfile, groupfile, sharedfile, rabundfile, sabundfile, fastafile, namefile;
+       string listfile, groupfile, countfile, sharedfile, rabundfile, sabundfile, fastafile, namefile;
        set<string> labels; //holds labels to be used
        string groups, label, outputDir;
        vector<string> Groups, outputNames;
        int size;
        vector<string> names;
        map<string, vector<string> > nameMap;
+    CountTable ct;
        
        int getSubSampleShared();
        int getSubSampleList();