*
*/
-#include "mothur.h"
+
#include "command.hpp"
#include "classify.h"
#include "referencedb.h"
bool abort, probs, save, flip;
int driver(linePair*, string, string, string, string);
- void appendTaxFiles(string, string);
int createProcesses(string, string, string, string);
string addUnclassifieds(string, int);