X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=makebiomcommand.h;fp=makebiomcommand.h;h=0000000000000000000000000000000000000000;hb=4a877efa127e56e81a21f53cfdbbfd3bfbe8c4ff;hp=9f80c2e70215b130a9020a83ce2daebb9e63a089;hpb=a6cf29fa4dac0909c7582cb1094151d34093ee76;p=mothur.git

diff --git a/makebiomcommand.h b/makebiomcommand.h
deleted file mode 100644
index 9f80c2e..0000000
--- a/makebiomcommand.h
+++ /dev/null
@@ -1,49 +0,0 @@
-#ifndef Mothur_makebiomcommand_h
-#define Mothur_makebiomcommand_h
-
-//
-//  makebiomcommand.h
-//  Mothur
-//
-//  Created by Sarah Westcott on 4/16/12.
-//  Copyright (c) 2012 Schloss Lab. All rights reserved.
-//
-
-
-#include "command.hpp"
-#include "sharedrabundvector.h"
-#include "inputdata.h"
-
-
-class MakeBiomCommand : public Command {
-	
-public:
-	MakeBiomCommand(string);
-	MakeBiomCommand();	
-	~MakeBiomCommand(){}
-	
-	vector<string> setParameters();
-	string getCommandName()			{ return "make.biom";	}
-	string getCommandCategory()		{ return "General";		}
-	string getHelpString();	
-	string getCitation() { return "http://biom-format.org/documentation/biom_format.html, http://www.mothur.org/wiki/Make.biom"; }
-	string getDescription()		{ return "creates a biom file"; }
-    
-	int execute(); 
-	void help() { m->mothurOut(getHelpString()); }	
-	
-private:
-    
-	string sharedfile, contaxonomyfile, groups, outputDir, format, label;
-	vector<string> outputNames, Groups;
-	set<string> labels;
-    
-	bool abort, allLines;
-    
-    int getBiom(vector<SharedRAbundVector*>&);
-    vector<string> getMetaData(vector<SharedRAbundVector*>&);
-    vector<string> parseTax(string tax, vector<string>& scores);
-};
-
-
-#endif