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

[mothur.git] / collectsharedcommand.h

diff --git a/collectsharedcommand.h b/collectsharedcommand.h
deleted file mode 100644 (file)
index 71c11d6..0000000
--- a/collectsharedcommand.h
+++ /dev/null
@@ -1,53 +0,0 @@
-#ifndef COLLECTSHAREDCOMMAND_H
-#define COLLECTSHAREDCOMMAND_H
-/*
- *  collectsharedcommand.h
- *  Dotur
- *
- *  Created by Sarah Westcott on 1/2/09.
- *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
- *
- */
-
-
-#include "command.hpp"
-#include "sharedordervector.h"
-#include "inputdata.h"
-#include "collect.h"
-#include "display.h"
-#include "validcalculator.h"
-#include "sharedutilities.h"
-
-
-class CollectSharedCommand : public Command {
-       
-public:
-       CollectSharedCommand(string);   
-       CollectSharedCommand(); 
-       ~CollectSharedCommand();
-       
-       vector<string> setParameters();
-       string getCommandName()                 { return "collect.shared";                      }
-       string getCommandCategory()             { return "OTU-Based Approaches";        }
-       string getHelpString(); 
-       string getCitation() { return "Schloss PD, Handelsman J (2006). Introducing SONS, A tool that compares the membership of microbial communities. Appl Environ Microbiol 72: 6773-9. \nhttp://www.mothur.org/wiki/Collect.shared"; }
-       string getDescription()         { return "generates collector's curves for calculators, which describe the similarity between communities or their shared richness"; }
-
-       int execute(); 
-       void help() { m->mothurOut(getHelpString()); }  
-       
-       
-private:
-       SharedOrderVector* order;
-       InputData* input;
-       Collect* cCurve;
-       vector<Display*> cDisplays;
-       float freq;
-
-       bool abort, allLines, all;
-       set<string> labels; //holds labels to be used
-       string label, calc, groups, outputDir, sharedfile;
-       vector<string>  Estimators, Groups, outputNames;
-};
-
-#endif