vector<string> setParameters();
string getCommandName() { return "otu.hierarchy"; }
string getCommandCategory() { return "OTU-Based Approaches"; }
- string getOutputFileNameTag(string, string);
+
string getHelpString();
+ string getOutputPattern(string);
string getCitation() { return "http://www.mothur.org/wiki/Otu.hierarchy"; }
string getDescription() { return "relates OTUs at different distances"; }
private:
bool abort;
- set<string> labels; //holds labels to be used
- string label, listFile, outputDir, output;
+ set<string> mylabels; //holds labels to be used
+ string label, listFile, outputDir, output, list1Label, list2Label;
vector<string> outputNames;
- vector<ListVector> getListVectors();
+ vector< vector<string> > getListVectors();
+ vector< vector<string> > getListVector(string, string&);
};