X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=treemap.h;h=12299731f89e10741926cd797fad2a02ed267c2d;hb=c5c7502f435e1413c19e373dab1dfebcaa67588d;hp=0dc74eec2fad5ebc157b4fd12e63a7b8b37c967a;hpb=bfbc55964f1977da72c2cea984288a427d370a59;p=mothur.git

diff --git a/treemap.h b/treemap.h
index 0dc74ee..1229973 100644
--- a/treemap.h
+++ b/treemap.h
@@ -10,7 +10,7 @@
  */
 
 #include "mothur.h"
-#include "utilities.hpp"
+#include "groupmap.h"
 
 /* This class is used by the read.tree command to build the tree container. */
 
@@ -19,7 +19,7 @@ struct GroupIndex {
 	int		vectorIndex;
 };
 
-
+class GroupMap;
 
 class TreeMap {
 public:
@@ -38,6 +38,8 @@ public:
     map<string,int> seqsPerGroup;	//groupname, number of seqs in that group.
 	map<string, GroupIndex> treemap; //sequence name and <groupname, vector index>
 	void print(ostream&);
+	void makeSim(GroupMap*);  //takes groupmap info and fills treemap for use by tree.groups command.
+	
 	
 private:
 	ifstream fileHandle;
@@ -47,6 +49,7 @@ private:
 	map<string, int>::iterator it2;
 	void setNamesOfGroups(string); 
 	
+	
 };
 
 #endif