HCluster* hcluster;
ListVector* list;
ListVector oldList;
+// RAbundVector rav;
vector<seqDist> overlapMatrix;
vector<string> outputNames;
double cutoff;
float penalty;
int precision, length, precisionLength;
- bool abort, minWanted, hclusterWanted, merge, hard;
+ bool abort, minWanted, hclusterWanted, merge, hard, large;
void printData(ListVector*);
ListVector* mergeOPFs(map<string, int>, float);
void sortHclusterFiles(string, string);
vector<seqDist> getSeqs(ifstream&);
- RAbundVector createRabund(ListVector, map<string, int>);
+// void createRabund(map<string, int>);
};