X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=phylodiversitycommand.h;fp=phylodiversitycommand.h;h=5d0cccf249099ac51d86b58e41e5098793ef3f3c;hb=f55cf350ca6643f8eb070d8336e1957699a3f109;hp=b44e6caed27037ddb177acdd1416df40550dee5c;hpb=eb4bb52af987ff4df7354d95d60cd763aec537e1;p=mothur.git

diff --git a/phylodiversitycommand.h b/phylodiversitycommand.h
index b44e6ca..5d0cccf 100644
--- a/phylodiversitycommand.h
+++ b/phylodiversitycommand.h
@@ -12,9 +12,8 @@
 
 #include "command.hpp"
 #include "treemap.h"
-#include "readtree.h"
 #include "sharedutilities.h"
-
+#include "tree.h"
 
 class PhyloDiversityCommand : public Command {
 	
@@ -33,14 +32,12 @@ class PhyloDiversityCommand : public Command {
 		int execute();
 		void help() { m->mothurOut(getHelpString()); }
 private:
-		ReadTree* read;
 		TreeMap* tmap;
 		float freq;
 		int iters, processors, numUniquesInName;  
 		bool abort, rarefy, summary, collect, scale;
 		string groups, outputDir, treefile, groupfile, namefile;
 		vector<string> Groups, outputNames; //holds groups to be used, and outputFile names
-		map<string, string> nameMap;
 		
 		int readNamesFile();
 		void printData(set<int>&, map< string, vector<float> >&, ofstream&, int);