X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=sensspeccommand.h;fp=sensspeccommand.h;h=52ab31ea6c96c88edb1b9b360cac7f9e38979a4e;hb=bc4c4d63e983a3e91e74b5038bfec6705e1a3a2e;hp=0000000000000000000000000000000000000000;hpb=5e350c02c92aa01b42b16baf84efbc24166f60a1;p=mothur.git

diff --git a/sensspeccommand.h b/sensspeccommand.h
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+#ifndef SENSSPECCOMMAND_H
+#define SENSSPECCOMMAND_H
+
+
+/*
+ *  sensspeccommand.h
+ *  Mothur
+ *
+ *  Created by Pat Schloss on 7/6/10.
+ *  Copyright 2010 Schloss Lab. All rights reserved.
+ *
+ */
+
+#include "mothur.h"
+#include "command.hpp"
+
+class SensSpecCommand : public Command {
+	
+public:
+	SensSpecCommand(string);
+	~SensSpecCommand();
+	int execute();
+	void help();
+	
+private:
+	void processPhylip();
+///	void processColumn(map<string, int>);
+	
+	string listFile, distFile, nameFile, outputDir;
+	string format;
+//	int numSeqs, numDists;
+	int truePositives, falsePositives, trueNegatives, falseNegatives;
+	bool abort;
+	bool hard;
+	string lineLabel;
+	double cutoff;
+};
+
+#endif
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