#include "listvector.hpp"
#include "fastamap.h"
#include "groupmap.h"
+#include "counttable.h"
class BinSeqCommand : public Command {
void help() { m->mothurOut(getHelpString()); }
private:
-
+ CountTable ct;
ListVector* list;
InputData* input;
FastaMap* fasta;
GroupMap* groupMap;
bool abort, allLines;
set<string> labels; //holds labels to be used
- string filename, fastafile, listfile, namesfile, groupfile, label, outputDir;
+ string filename, fastafile, listfile, namesfile, groupfile, countfile, label, outputDir;
ofstream out;
ifstream in, inNames;
vector<string> outputNames;