vector<string> setParameters();
string getCommandName() { return "tree.shared"; }
string getCommandCategory() { return "OTU-Based Approaches"; }
- string getOutputFileNameTag(string, string);
+
string getHelpString();
+ string getOutputPattern(string);
string getCitation() { return "http://www.mothur.org/wiki/Tree.shared"; }
string getDescription() { return "generate a tree file that describes the dissimilarity among groups"; }
unsigned long long start;
unsigned long long end;
MothurOut* m;
+ int count;
treeSharedData(){}
treeSharedData(MothurOut* mout, unsigned long long st, unsigned long long en, vector<string> est, vector<SharedRAbundVector*> lu) {
end = en;
Estimators = est;
thisLookup = lu;
+ count=0;
}
};
/**************************************************************************************************/
vector<SharedRAbundVector*> subset;
for (int k = pDataArray->start; k < pDataArray->end; k++) { // pass cdd each set of groups to compare
+ pDataArray->count++;
+
for (int l = 0; l < k; l++) {
if (k != l) { //we dont need to similiarity of a groups to itself