X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=splitmatrix.h;h=4ff316073789b694916a75fae5d2081a813d96c7;hb=2bb9267aa4b4ecdf8488b06605cc9f3f36fa4332;hp=5974ff1b967a5b3313bea6dcbcf967eb4b1c5023;hpb=725a3d4ff2442c79bfde0a75ed3e0904edcf03b7;p=mothur.git

diff --git a/splitmatrix.h b/splitmatrix.h
index 5974ff1..4ff3160 100644
--- a/splitmatrix.h
+++ b/splitmatrix.h
@@ -19,18 +19,30 @@ class SplitMatrix  {
 	
 	public:
 
-		SplitMatrix(string, string, float); //column formatted distance file, namesfile, cutoff
+		SplitMatrix(string, string, string, float, string, bool); //column formatted distance file, namesfile, cutoff, method, large
+		SplitMatrix(string, string, string, float, float, string, int, string); //fastafile, namefile, taxFile, taxcutoff, cutoff, method, processors, outputDir
+		
 		~SplitMatrix();
 		int split();
 		vector< map<string, string> > getDistanceFiles();  //returns map of distance files -> namefile sorted by distance file size
 		string getSingletonNames() { return singleton; } //returns namesfile containing singletons
 	
 	private:
-		string distFile, namefile, singleton;
-		vector< map< string, string> > dists;
-		float cutoff;
-		
 		MothurOut* m;
+
+		string distFile, namefile, singleton, method, taxFile, fastafile, outputDir;
+		vector< map< string, string> > dists;
+		float cutoff, distCutoff;
+		bool large;
+		int processors;
+				
+		int splitDistance();
+		int splitClassify();
+		int splitDistanceLarge();
+		int splitDistanceRAM();
+		int splitNames(vector<set<string> >& groups);
+		int splitDistanceFileByTax(map<string, int>&, int);
+		int createDistanceFilesFromTax(map<string, int>&, int);
 };
 
 /******************************************************/