added mpi code to cluster.split command

[mothur.git] / getrelabundcommand.h

diff --git a/getrelabundcommand.h b/getrelabundcommand.h
new file mode 100644 (file)
index 0000000..aa123a4
--- /dev/null
+++ b/getrelabundcommand.h
@@ -0,0 +1,44 @@
+#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
+