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

[mothur.git] / linearalgebra.h

diff --git a/linearalgebra.h b/linearalgebra.h
deleted file mode 100644 (file)
index ecb635f..0000000
--- a/linearalgebra.h
+++ /dev/null
@@ -1,65 +0,0 @@
-#ifndef LINEARALGEBRA
-#define LINEARALGEBRA
-
-/*
- *  linearalgebra.h
- *  mothur
- *
- *  Created by westcott on 1/7/11.
- *  Copyright 2011 Schloss Lab. All rights reserved.
- *
- */
-
-#include "mothurout.h"
-
-
-class LinearAlgebra {
-       
-public:
-       LinearAlgebra() { m = MothurOut::getInstance(); }
-       ~LinearAlgebra() {}
-       
-       vector<vector<double> > matrix_mult(vector<vector<double> >, vector<vector<double> >);
-       void recenter(double, vector<vector<double> >, vector<vector<double> >&);
-       int tred2(vector<vector<double> >&, vector<double>&, vector<double>&);
-       int qtli(vector<double>&, vector<double>&, vector<vector<double> >&);
-       vector< vector<double> > calculateEuclidianDistance(vector<vector<double> >&, int); //pass in axes and number of dimensions
-       vector< vector<double> > calculateEuclidianDistance(vector<vector<double> >&); //pass in axes
-       vector<vector<double> > getObservedEuclideanDistance(vector<vector<double> >&);
-       double calcPearson(vector<vector<double> >&, vector<vector<double> >&);
-       double calcSpearman(vector<vector<double> >&, vector<vector<double> >&);
-       double calcKendall(vector<vector<double> >&, vector<vector<double> >&);
-       
-       double calcPearson(vector<double>&, vector<double>&, double&);
-       double calcSpearman(vector<double>&, vector<double>&, double&);
-       double calcKendall(vector<double>&, vector<double>&, double&);
-    
-       double calcSpearmanSig(double, double, double, double); //length, f^3 - f where f is the number of ties in x, f^3 - f where f is the number of ties in y, sum of squared diffs in ranks. - designed to find the sif of one score.
-    double calcPearsonSig(double, double); //length, coeff.
-    double calcKendallSig(double, double); //length, coeff.
-    
-    
-private:
-       MothurOut* m;
-       
-       double pythag(double, double);
-    double betacf(const double, const double, const double);
-    double betai(const double, const double, const double);
-    double gammln(const double);
-    double gammp(const double, const double);
-    double gammq(const double, const double);
-    double gser(double&, const double, const double, double&);
-    double gcf(double&, const double, const double, double&);
-    double erfcc(double);
-    
-    double ran0(int&); //for testing 
-    double ran1(int&); //for testing
-    double ran2(int&); //for testing
-    double ran3(int&); //for testing
-    double ran4(int&); //for testing
-    void psdes(unsigned long &, unsigned long &); //for testing
-    
-};
-
-#endif
-