From 6f0e427633e7ee80b6494eb677ad60e6cea94d62 Mon Sep 17 00:00:00 2001
From: Kathryn Iverson <kd.iverson@gmail.com>
Date: Tue, 3 Jul 2012 15:01:16 -0400
Subject: [PATCH] fixed pointers in mgcluster

---
 mgclustercommand.cpp | 6 +++---
 mgclustercommand.h   | 3 ++-
 2 files changed, 5 insertions(+), 4 deletions(-)

diff --git a/mgclustercommand.cpp b/mgclustercommand.cpp
index 878d6a4..cffb80f 100644
--- a/mgclustercommand.cpp
+++ b/mgclustercommand.cpp
@@ -247,8 +247,8 @@ int MGClusterCommand::execute(){
         
         if(countfile != "") {
             //map<string, int> nameMapCounts = m->readNames(namefile);
-            CountTable ct = new CountTable();
-            ct.readTable(countfile);
+            ct = new CountTable();
+            ct->readTable(countfile);
             createRabund(ct, list);
             rabund = &rav;
         }else {
@@ -724,7 +724,7 @@ void MGClusterCommand::sortHclusterFiles(string unsortedDist, string unsortedOve
 
 //**********************************************************************************************************************
 
-void MGClusterCommand::createRabund(CountTable ct, ListVector list){
+void MGClusterCommand::createRabund(CountTable* ct, ListVector* list){
     try {
         //vector<string> names = ct.getNamesOfSeqs();
 
diff --git a/mgclustercommand.h b/mgclustercommand.h
index 6f44533..0626b86 100644
--- a/mgclustercommand.h
+++ b/mgclustercommand.h
@@ -47,6 +47,7 @@ private:
 	Cluster* cluster;
 	HCluster* hcluster;
 	ListVector* list;
+    CountTable* ct;
 	ListVector oldList;
     RAbundVector rav;
 	vector<seqDist> overlapMatrix;
@@ -63,7 +64,7 @@ private:
 	ListVector* mergeOPFs(map<string, int>, float);
 	void sortHclusterFiles(string, string);
 	vector<seqDist> getSeqs(ifstream&);
-    void createRabund(CountTable);
+    void createRabund(CountTable*, ListVector*);
 
 };
 
-- 
2.39.2