X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;ds=sidebyside;f=collectsharedcommand.h;fp=collectsharedcommand.h;h=0000000000000000000000000000000000000000;hb=4a877efa127e56e81a21f53cfdbbfd3bfbe8c4ff;hp=71c11d62666149a57f88703b253b55c774cb3e70;hpb=a6cf29fa4dac0909c7582cb1094151d34093ee76;p=mothur.git

diff --git a/collectsharedcommand.h b/collectsharedcommand.h
deleted file mode 100644
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