X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=mgclustercommand.h;h=b5b295f1edb4495d321a7e614db1e8309d8bc481;hb=96dbe925073caefaed6e6db85659c144a806aeb1;hp=6f4453316a33d41cb18774d6c9b435bc563980e2;hpb=7a2c74cd89b3c21e9ec2207e529304db68f1391a;p=mothur.git

diff --git a/mgclustercommand.h b/mgclustercommand.h
index 6f44533..b5b295f 100644
--- a/mgclustercommand.h
+++ b/mgclustercommand.h
@@ -12,7 +12,6 @@
 
 #include "command.hpp"
 #include "readblast.h"
-#include "sparsematrix.hpp"
 #include "nameassignment.hpp"
 #include "cluster.hpp"
 #include "hcluster.h"
@@ -47,6 +46,7 @@ private:
 	Cluster* cluster;
 	HCluster* hcluster;
 	ListVector* list;
+    CountTable* ct;
 	ListVector oldList;
     RAbundVector rav;
 	vector<seqDist> overlapMatrix;
@@ -57,13 +57,13 @@ private:
 	double cutoff;
 	float penalty;
 	int precision, length, precisionLength;
-	bool abort, minWanted, hclusterWanted, merge, hard, large;
+	bool abort, minWanted, hclusterWanted, merge, hard;
 	
 	void printData(ListVector*);
 	ListVector* mergeOPFs(map<string, int>, float);
 	void sortHclusterFiles(string, string);
 	vector<seqDist> getSeqs(ifstream&);
-    void createRabund(CountTable);
+    void createRabund(CountTable*&, ListVector*&, RAbundVector*&);
 
 };