Revert to previous commit

[mothur.git] / source / consensusseqscommand.h

diff --git a/source/consensusseqscommand.h b/source/consensusseqscommand.h
deleted file mode 100644 (file)
index 423c4e4..0000000
--- a/source/consensusseqscommand.h
+++ /dev/null
@@ -1,56 +0,0 @@
-#ifndef CONSENSUSSEQSCOMMAND_H
-#define CONSENSUSSEQSCOMMAND_H
-//test
-/*
- *  consensusseqscommand.h
- *  Mothur
- *
- *  Created by westcott on 11/23/10.
- *  Copyright 2010 Schloss Lab. All rights reserved.
- *
- */
-
-
-#include "command.hpp"
-#include "listvector.hpp"
-
-class ConsensusSeqsCommand : public Command {
-public:
-       ConsensusSeqsCommand(string);
-       ConsensusSeqsCommand();
-       ~ConsensusSeqsCommand(){}
-       
-       vector<string> setParameters();
-       string getCommandName()                 { return "consensus.seqs";              }
-       string getCommandCategory()             { return "Sequence Processing"; }
-       string getHelpString(); 
-       string getCitation() { return "http://www.mothur.org/wiki/Consensus.seqs"; }
-       string getDescription()         { return "create a consensus sequence for each OTU or for a fasta file"; }
-
-       
-       int execute(); 
-       void help() { m->mothurOut(getHelpString()); }  
-       
-private:
-       
-       bool abort, allLines;
-       string fastafile, listfile, namefile, label, outputDir;
-       set<string> labels;
-       vector<string> outputNames;
-       map<string, string> fastaMap;
-       map<string, string> nameMap;
-       map<string, string> nameFileMap;
-       int cutoff;
-       
-       int readFasta();
-       int readNames();
-       int processList(ListVector*&);
-       string getConsSeq(string, ofstream&, string&, int);
-       char getBase(vector<int>, int);
-};
-
-#endif
-
-
-
-