X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=unifracunweightedcommand.h;h=cd46b62b3462a4db2baa57865743d4bb37c198a7;hb=fca3f55d5ded10c3dc77856f3cc4a1c53b02bb6f;hp=3e6d8354af5eda2c21f85c632a09b886962afb37;hpb=bd93b1a6f9fe9a6a4a7ac2e9f106e5c83a438856;p=mothur.git

diff --git a/unifracunweightedcommand.h b/unifracunweightedcommand.h
index 3e6d835..cd46b62 100644
--- a/unifracunweightedcommand.h
+++ b/unifracunweightedcommand.h
@@ -23,7 +23,12 @@ class UnifracUnweightedCommand : public Command {
 	
 	public:
 		UnifracUnweightedCommand(string);	
+		UnifracUnweightedCommand();
 		~UnifracUnweightedCommand() { globaldata->Groups.clear();  if (abort == false) { delete unweighted; delete util; } }
+		vector<string> getRequiredParameters();
+		vector<string> getValidParameters();
+		vector<string> getRequiredFiles();
+		map<string, vector<string> > getOutputFiles() { return outputTypes; }
 		int execute();
 		void help();	
 	
@@ -45,9 +50,10 @@ class UnifracUnweightedCommand : public Command {
 		vector< map<float, float> > rscoreFreq;  //map <unweighted score, number of random trees with that score.> -vector entry for each combination.
 		vector< map<float, float> > rCumul;  //map <unweighted score, cumulative percentage of number of random trees with that score or higher.> -vector entry for each combination.
 		
-		bool abort, phylip, random;
-		string groups, itersString, outputDir;
+		bool abort, phylip, random, includeRoot;
+		string groups, itersString, outputDir, outputForm;
 		vector<string> Groups, outputNames; //holds groups to be used
+		map<string, vector<string> > outputTypes;
 
 		ofstream outSum, out;
 		ifstream inFile;