X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=getrelabundcommand.h;fp=getrelabundcommand.h;h=aa123a4f24e73c8b9a1dc94449e2acccbfc003cb;hb=4ee9d3c973fb056f3105c26306da3b5d7dfb8108;hp=0000000000000000000000000000000000000000;hpb=2bb20fb79f19b8bda48492d89f8e8b7389431413;p=mothur.git

diff --git a/getrelabundcommand.h b/getrelabundcommand.h
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+++ b/getrelabundcommand.h
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+#ifndef GETRELABUNDCOMMAND_H
+#define GETRELABUNDCOMMAND_H
+
+/*
+ *  getrelabundcommand.h
+ *  Mothur
+ *
+ *  Created by westcott on 6/21/10.
+ *  Copyright 2010 Schloss Lab. All rights reserved.
+ *
+ */
+ 
+#include "command.hpp"
+#include "inputdata.h"
+#include "readotu.h"
+#include "sharedrabundvector.h"
+
+class GlobalData;
+
+class GetRelAbundCommand : public Command {
+
+public:
+	GetRelAbundCommand(string);
+	~GetRelAbundCommand();
+	int execute();
+	void help();
+	
+private:
+	GlobalData* globaldata;
+	ReadOTUFile* read;
+	InputData* input;
+	vector<SharedRAbundVector*> lookup;
+	
+	bool abort, allLines;
+	set<string> labels; //holds labels to be used
+	string groups, label, outputDir, scale;
+	vector<string> Groups;
+	
+	int getRelAbundance(vector<SharedRAbundVector*>, ofstream&);
+
+};
+
+#endif
+