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

[mothur.git] / getotuscommand.h

diff --git a/getotuscommand.h b/getotuscommand.h
deleted file mode 100644 (file)
index 1a78493..0000000
--- a/getotuscommand.h
+++ /dev/null
@@ -1,54 +0,0 @@
-#ifndef GETOTUSCOMMAND_H
-#define GETOTUSCOMMAND_H
-
-/*
- *  getotuscommand.h
- *  Mothur
- *
- *  Created by westcott on 11/10/10.
- *  Copyright 2010 Schloss Lab. All rights reserved.
- *
- */
-
-
-
-#include "command.hpp"
-#include "groupmap.h"
-#include "listvector.hpp"
-
-class GetOtusCommand : public Command {
-       
-public:
-       
-       GetOtusCommand(string); 
-       GetOtusCommand();
-       ~GetOtusCommand(){}
-       
-       vector<string> setParameters();
-       string getCommandName()                 { return "get.otus";                            }
-       string getCommandCategory()             { return "OTU-Based Approaches";        }
-       string getHelpString(); 
-       string getCitation() { return "http://www.mothur.org/wiki/Get.otus"; }
-       string getDescription()         { return "outputs a new list file containing the otus containing sequences from the groups specified"; }
-
-       
-       int execute(); 
-       void help() { m->mothurOut(getHelpString()); }  
-       
-       
-private:
-       string accnosfile, groupfile, listfile, outputDir, groups, label;
-       bool abort;
-       vector<string> outputNames, Groups;
-       GroupMap* groupMap;
-       
-       void readAccnos();
-       int readListGroup();
-       int processList(ListVector*&, GroupMap*&, ofstream&, ofstream&, bool&);
-       
-};
-
-#endif
-
-
-