X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=binsequencecommand.h;fp=binsequencecommand.h;h=22847dce9b45604515c97fab55a2673813324ec2;hb=f18d75f9c996cb619a5051a7664620c0c5ae05fb;hp=0000000000000000000000000000000000000000;hpb=f20505bcd9f07e0b5f967be0e8d414076d9a5678;p=mothur.git

diff --git a/binsequencecommand.h b/binsequencecommand.h
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+#ifndef BINSEQCOMMAND_H
+#define BINSEQCOMMAND_H
+/*
+ *  binsequencecommand.h
+ *  Mothur
+ *
+ *  Created by Sarah Westcott on 4/3/09.
+ *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
+ *
+ */
+
+
+#include "command.hpp"
+#include "inputdata.h"
+#include "listvector.hpp"
+#include "readmatrix.hpp"
+#include "fastamap.h"
+
+
+class GlobalData;
+
+class BinSeqCommand : public Command {
+	
+public:
+	BinSeqCommand();	
+	~BinSeqCommand();
+	int execute();	
+	
+private:
+	GlobalData* globaldata;
+	ListVector* list;
+	ReadMatrix* read;
+	InputData* input;
+	FastaMap* fasta;
+	string filename, fastafile, namesfile;
+	ofstream out;
+	ifstream in, inNames;
+	
+	void readNamesFile();
+};
+
+#endif