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[mothur.git] / readsabundfilecommand.h

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+#ifndef READSABUNDFILECOMMAND_H
+#define READSABUNDFILECOMMAND_H
+/*
+ *  readsabundfilecommand.h
+ *  Dotur
+ *
+ *  Created by Sarah Westcott on 1/2/09.
+ *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
+ *
+ */
+
+#include <Carbon/Carbon.h>
+#include <iostream>
+#include <fstream>
+#include "command.hpp"
+#include "readmatrix.hpp"
+#include "inputdata.h"
+
+/* The read.sabund command parameter options are sabundfile and orderfile.  
+The read.sabund command should be in the following format: 
+read.sabund(sabundfile=yourSabundFile, orderfile=yourOrderFile). The sabundfile parameter is required.*/
+
+class GlobalData;
+
+class ReadSAbundFileCommand : public Command {
+public:
+       ReadSAbundFileCommand();
+       ~ReadSAbundFileCommand();
+       int execute();
+       
+private:
+       GlobalData* globaldata;
+       ReadMatrix* read;
+       InputData* input;
+       string filename;
+};
+
+#endif
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