X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=getrelabundcommand.h;h=90d5f9a2ceb9c3164640d8482e88599324557495;hb=c921bbf0623d5200f69b5d83b3c70ea533c69412;hp=9725a31ab546f0829ec4ca0bf370e6792fdfeadf;hpb=762b3e4c83e1e8e8392c1199b6482d36ee89e50f;p=mothur.git

diff --git a/getrelabundcommand.h b/getrelabundcommand.h
index 9725a31..90d5f9a 100644
--- a/getrelabundcommand.h
+++ b/getrelabundcommand.h
@@ -21,7 +21,12 @@ class GetRelAbundCommand : public Command {
 
 public:
 	GetRelAbundCommand(string);
+	GetRelAbundCommand();
 	~GetRelAbundCommand();
+	vector<string> getRequiredParameters();
+	vector<string> getValidParameters();
+	vector<string> getRequiredFiles();
+	map<string, vector<string> > getOutputFiles() { return outputTypes; }
 	int execute();
 	void help();
 	
@@ -34,10 +39,10 @@ private:
 	bool abort, allLines, pickedGroups;
 	set<string> labels; //holds labels to be used
 	string groups, label, outputDir, scale;
-	vector<string> Groups;
+	vector<string> Groups, outputNames;
+	map<string, vector<string> > outputTypes;
 	
 	int getRelAbundance(vector<SharedRAbundVector*>&, ofstream&);
-	int eliminateZeroOTUS(vector<SharedRAbundVector*>& thislookup);
 
 };