moved mothur's source into a folder to make grabbing just the source easier on github

[mothur.git] / binsequencecommand.h

diff --git a/binsequencecommand.h b/binsequencecommand.h
deleted file mode 100644 (file)
index 365fb3c..0000000
--- a/binsequencecommand.h
+++ /dev/null
@@ -1,54 +0,0 @@
-#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.
- *
- */
-
-/* The bin.seqs command outputs a .fasta file for each distance you specify appending the OTU number to each name. */
-
-#include "command.hpp"
-#include "inputdata.h"
-#include "listvector.hpp"
-#include "fastamap.h"
-#include "groupmap.h"
-
-class BinSeqCommand : public Command {
-       
-public:
-       BinSeqCommand(string);  
-       BinSeqCommand();
-       ~BinSeqCommand();
-       
-       vector<string> setParameters();
-       string getCommandName()                 { return "bin.seqs";                    }
-       string getCommandCategory()             { return "Sequence Processing"; }
-       string getHelpString(); 
-       string getCitation() { return "http://www.mothur.org/wiki/Bin.seqs"; }
-       string getDescription()         { return "maps sequences to otus"; }
-       
-       int execute(); 
-       void help() { m->mothurOut(getHelpString()); }          
-       
-private:
-       
-       ListVector* list;
-       InputData* input;
-       FastaMap* fasta;
-       GroupMap* groupMap;
-       bool abort, allLines;
-       set<string> labels; //holds labels to be used
-       string filename, fastafile, listfile, namesfile, groupfile, label, outputDir;
-       ofstream out;
-       ifstream in, inNames;
-       vector<string> outputNames;
-       
-       void readNamesFile();
-       int process(ListVector*);
-};
-
-#endif