#include "mothur.h"
#include "command.hpp"
-//#include "alignment.hpp"
#include "classify.h"
//KNN and Bayesian methods modeled from algorithms in
ClassifySeqsCommand(string);
ClassifySeqsCommand();
~ClassifySeqsCommand();
- vector<string> getRequiredParameters();
- vector<string> getValidParameters();
- vector<string> getRequiredFiles();
- map<string, vector<string> > getOutputFiles() { return outputTypes; }
+
+ vector<string> setParameters();
+ string getCommandName() { return "classify.seqs"; }
+ string getCommandCategory() { return "Phylotype Analysis"; }
+ string getHelpString();
+
int execute();
- void help();
+ void help() { m->mothurOut(getHelpString()); }
+
+
private:
struct linePair {
vector<string> outputNames;
map<string, vector<string> > nameMap;
map<string, vector<string> >::iterator itNames;
- map<string, vector<string> > outputTypes;
Classify* classify;