heatmap

[mothur.git] / sharedrabundvector.h

diff --git a/sharedrabundvector.h b/sharedrabundvector.h
index 6f8d630c4fdfe490e9a32912089608bb7892482c..41a5798ed295489a0d786fd52a400407104e8a6a 100644 (file)
--- a/sharedrabundvector.h
+++ b/sharedrabundvector.h
@@ -1,8 +1,8 @@
-#ifndef SHAREDVECTOR_H
-#define SHAREDVECTOR_H
+#ifndef SHAREDRABUNDVECTOR_H
+#define SHAREDRABUNDVECTOR_H
 
 /*
- *  sharedvector.h
+ *  sharedrabundvector.h
  *  Dotur
  *
  *  Created by Sarah Westcott on 12/5/08.
@@ -10,10 +10,16 @@
  *
  */
 
-#include <Carbon/Carbon.h>
 #include "datavector.hpp"
 #include "sharedordervector.h"
+#include "sharedsabundvector.h"
+#include "rabundvector.hpp"
 
+/* This class is a child to datavector.  It represents OTU information at a certain distance. 
+       It is similiar to an rabundvector except each member of data knows which group it belongs to.
+       Each member of the internal container "data" is a struct of type individual. 
+       An individual which knows the OTU from which it came, 
+       the group it is in and its abundance.  */
 
 
 
@@ -31,12 +37,14 @@ public:
        int getNumSeqs();                                                       
        int getMaxRank();
        string getGroup();
-       void setGroup(string);                                                  
+       void setGroup(string);
+       int getGroupIndex();
+       void setGroupIndex(int);                                                                
 
-       void set(int, int, string);     
+       void set(int, int, string);                     //OTU, abundance, groupname
        individual get(int);
        int getAbundance(int);
-       void push_back(int, int, string);
+       void push_back(int, int, string);  //abundance, OTU, groupname
        void pop_back();
        void resize(int);
        int size();
@@ -45,17 +53,20 @@ public:
        
        void print(ostream&);
                
-       SharedRAbundVector getSharedRAbundVector();
+       RAbundVector getRAbundVector();
        SAbundVector getSAbundVector();
        OrderVector getOrderVector(map<string,int>*);
        SharedOrderVector getSharedOrderVector();
+       SharedSAbundVector getSharedSAbundVector();
+       SharedRAbundVector getSharedRAbundVector();
        
 private:
        vector<individual>  data; 
        int maxRank;
        int numBins;
        int numSeqs;
-       string group;   
+       string group;
+       int index;      
 };