public:
OtuHierarchyCommand(string);
- ~OtuHierarchyCommand();
- int execute();
- void help();
+ OtuHierarchyCommand();
+ ~OtuHierarchyCommand(){}
+
+ vector<string> setParameters();
+ string getCommandName() { return "otu.hierarchy"; }
+ string getCommandCategory() { return "OTU-Based Approaches"; }
+
+ string getHelpString();
+ string getOutputPattern(string);
+ string getCitation() { return "http://www.mothur.org/wiki/Otu.hierarchy"; }
+ string getDescription() { return "relates OTUs at different distances"; }
+
+
+ int execute();
+ void help() { m->mothurOut(getHelpString()); }
+
private:
bool abort;
set<string> labels; //holds labels to be used
- string label, listFile;
+ string label, listFile, outputDir, output;
+ vector<string> outputNames;
vector<ListVector> getListVectors();