-#ifndef CLUSTER_H
-#define CLUSTER_H
+#ifndef CLUSTERCLASSIC_H
+#define CLUSTERCLASSIC_H
-#include "mothur.h"
#include "mothurout.h"
#include "listvector.hpp"
-#include "globaldata.hpp"
#include "rabundvector.hpp"
+#include "nameassignment.hpp"
/*
* clusterclassic.h
class ClusterClassic {
public:
- ClusterClassic(float, string);
+ ClusterClassic(float, string, bool);
int readPhylipFile(string, NameAssignment*);
void update(double&);
double getSmallDist() { return smallDist; }
int getNSeqs() { return nseqs; }
ListVector* getListVector() { return list; }
RAbundVector* getRAbundVector() { return rabund; }
- string getTag();
+ string getTag() { return tag; }
void setMapWanted(bool m);
map<string, int> getSeqtoBin() { return seq2Bin; }
int smallRow;
int smallCol, nseqs;
double smallDist;
- bool mapWanted;
+ bool mapWanted, sim;
double cutoff, aboveCutoff;
map<string, int> seq2Bin;
- string method;
+ string method, tag;
MothurOut* m;
- GlobalData* globaldata;
};
#endif