vector<string> setParameters();
string getCommandName() { return "homova"; }
string getCommandCategory() { return "Hypothesis Testing"; }
- string getHelpString();
+ string getHelpString();
+ string getOutputPattern(string);
+ string getCitation() { return "Stewart CN, Excoffier L (1996). Assessing population genetic structure and variability with RAPD data: Application to Vaccinium macrocarpon (American Cranberry). J Evol Biol 9: 153-71. \nhttp://www.mothur.org/wiki/Homova"; }
+ string getDescription() { return "homova"; }
+
int execute();
void help() { m->mothurOut(getHelpString()); }
map<string, vector<int> > getRandomizedGroups(map<string, vector<int> >);
bool abort;
- vector<string> outputNames;
+ vector<string> outputNames, Sets;
string outputDir, inputDir, designFileName, phylipFileName;
GroupMap* designMap;