X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=mothurmetastats.h;h=4d6cf9166816f9f775e97eedc8a3231ec6daecd8;hb=1a968f34ae2d2680eaf189a197d1a21b8dfd6c03;hp=229ffb65a401b61472dad302677037161ce27642;hpb=7f0cae4f4853cc3f12bc751ee06ea31c7c97496e;p=mothur.git

diff --git a/mothurmetastats.h b/mothurmetastats.h
index 229ffb6..4d6cf91 100644
--- a/mothurmetastats.h
+++ b/mothurmetastats.h
@@ -23,27 +23,26 @@ class MothurMetastats {
 	
 	private:
 		MothurOut* m;
-		int row, column, numPermutations;
+		int row, column, numPermutations, secondGroupingStart;
 		double threshold;
-	
+        
+    vector<double> permuted_pvalues(vector< vector<double> >&, vector<double>&, vector< vector<double> >&);
+    vector<double> permute_and_calc_ts(vector< vector<double> >&);
+    
 		int start(vector<double>&, int, vector<double>&, vector< vector<double> >&); //Find the initial values for the matrix
 		int meanvar(vector<double>&, int, vector<double>&);
 		int testp(vector<double>&, vector<double>&, vector<double>&, int, vector<double>&, vector<double>&);
 		int permute_matrix(vector<double>&, vector<double>&, int, vector<double>&, vector<double>&, vector<double>&);
 		int permute_array(vector<int>&);
 		int calc_twosample_ts(vector<double>&, int, vector<double>&, vector<double>&, vector<double>&);
-		vector<double> smoothSpline(vector<double>, vector<double>, int);
+		double smoothSpline(vector<double>&, vector<double>&, int);
 		vector<double> calc_qvalues(vector<double>&);
-		vector<double> sknot1(vector<double>);
+		vector<double> sknot1(double*, int);
 		int nkn(int);
 		int OrderPValues(int, int, vector<double>&, vector<int>&);
 		int swapElements(int, int, vector<double>&, vector<int>&);
 		vector<int> getSequence(int, int, int);
 		
-		int spline(vector<double>&, vector<double>&, int, int, vector<double>&);
-		int splint(vector<double>&, vector<double>&, double&, double&, vector<double>&);
-
-
 };
 	
 #endif