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

[mothur.git] / summarycommand.h

diff --git a/summarycommand.h b/summarycommand.h
deleted file mode 100644 (file)
index 15b7f40..0000000
--- a/summarycommand.h
+++ /dev/null
@@ -1,54 +0,0 @@
-#ifndef SUMMARYCOMMAND_H
-#define SUMMARYCOMMAND_H
-/*
- *  summarycommand.h
- *  Dotur
- *
- *  Created by Sarah Westcott on 1/2/09.
- *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
- *
- */
-
-#include "command.hpp"
-#include "sabundvector.hpp"
-#include "inputdata.h"
-#include "calculator.h"
-#include "validcalculator.h"
-
-class SummaryCommand : public Command {
-
-public:
-       SummaryCommand(string);
-       SummaryCommand();
-       ~SummaryCommand(){}
-       
-       vector<string> setParameters();
-       string getCommandName()                 { return "summary.single";                      }
-       string getCommandCategory()             { return "OTU-Based Approaches";        }
-       string getHelpString(); 
-       string getCitation() { return "http://www.mothur.org/wiki/Summary.single"; }
-       string getDescription()         { return "generate summary file that has the calculator value for each line in the OTU data"; }
-
-       
-       int execute(); 
-       void help() { m->mothurOut(getHelpString()); }  
-       
-private:
-       vector<Calculator*> sumCalculators;     
-       InputData* input;
-       SAbundVector* sabund;
-       int abund, size;
-
-       bool abort, allLines, groupMode;
-       set<string> labels; //holds labels to be used
-       string label, calc, outputDir, sharedfile, listfile, rabundfile, sabundfile, format, inputfile;
-       vector<string>  Estimators;
-       vector<string> inputFileNames, outputNames;
-       vector<string> groups;
-       
-       vector<string> parseSharedFile(string);
-       string createGroupSummaryFile(int, int, vector<string>&);
-
-
-};
-#endif