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

[mothur.git] / mergegroupscommand.h

diff --git a/mergegroupscommand.h b/mergegroupscommand.h
deleted file mode 100644 (file)
index 7f216eb..0000000
--- a/mergegroupscommand.h
+++ /dev/null
@@ -1,50 +0,0 @@
-#ifndef MERGEGROUPSCOMMAND_H
-#define MERGEGROUPSCOMMAND_H
-
-/*
- *  mergegroupscommand.h
- *  mothur
- *
- *  Created by westcott on 1/24/11.
- *  Copyright 2011 Schloss Lab. All rights reserved.
- *
- */
-
-#include "command.hpp"
-#include "inputdata.h"
-#include "sharedrabundvector.h"
-
-class MergeGroupsCommand : public Command {
-       
-public:
-       MergeGroupsCommand(string);
-       MergeGroupsCommand();
-       ~MergeGroupsCommand() {}
-       
-       vector<string> setParameters();
-       string getCommandName()                 { return "merge.groups";        }
-       string getCommandCategory()             { return "General";                     }
-       string getHelpString(); 
-       string getCitation() { return "http://www.mothur.org/wiki/Merge.groups"; }
-       string getDescription()         { return "reads shared file and a design file and merges the groups in the shared file that are in the same grouping in the design file"; }
-
-       
-       int execute(); 
-       void help() { m->mothurOut(getHelpString()); }  
-       
-private:
-       GroupMap* designMap;
-       vector<SharedRAbundVector*> lookup;
-       
-       bool abort, allLines, pickedGroups;
-       set<string> labels; //holds labels to be used
-       string groups, label, outputDir, inputDir, designfile, sharedfile, groupfile;
-       vector<string> Groups, outputNames;
-               
-       int process(vector<SharedRAbundVector*>&, ofstream&);
-       int processSharedFile(GroupMap*&);
-       int processGroupFile(GroupMap*&);
-};
-
-#endif
-