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

[mothur.git] / otuassociationcommand.h

diff --git a/otuassociationcommand.h b/otuassociationcommand.h
deleted file mode 100644 (file)
index 7aaa88a..0000000
--- a/otuassociationcommand.h
+++ /dev/null
@@ -1,52 +0,0 @@
-#ifndef OTUASSOCIATIONCOMMAND_H
-#define OTUASSOCIATIONCOMMAND_H
-
-/*
- *  otuassociationcommand.h
- *  Mothur
- *
- *  Created by westcott on 1/19/12.
- *  Copyright 2012 Schloss Lab. All rights reserved.
- *
- */
-
-
-#include "command.hpp"
-#include "sharedrabundfloatvector.h"
-#include "inputdata.h"
-
-
-class OTUAssociationCommand : public Command {
-public:
-       OTUAssociationCommand(string);
-       OTUAssociationCommand();
-       ~OTUAssociationCommand(){}
-       
-       vector<string> setParameters();
-       string getCommandName()                 { return "otu.association";                     }
-       string getCommandCategory()             { return "Hypothesis Testing";          }
-       string getHelpString(); 
-       string getCitation() { return "http://www.mothur.org/wiki/Otu.association"; }
-       string getDescription()         { return "calculate the correlation coefficient for the otus in a shared/relabund file"; }
-       
-       int execute();
-       void help() { m->mothurOut(getHelpString()); }  
-private:
-       
-       string sharedfile, relabundfile, groups, label, inputFileName, outputDir, method;
-       bool abort, pickedGroups, allLines;
-       set<string> labels;
-       
-       vector<string> outputNames, Groups;
-       int processShared();
-       int process(vector<SharedRAbundVector*>&);
-       int processRelabund();
-       int process(vector<SharedRAbundFloatVector*>&);
-       
-};
-
-
-#endif
-
-
-