added an alignreport option to screen seqs

[mothur.git] / sharedlistvector.h

diff --git a/sharedlistvector.h b/sharedlistvector.h
index f62248db77da9895e25fcb57f687fcf24922b47d..2c8d01bf4c257a715f789412a4391169138af9b6 100644 (file)
--- a/sharedlistvector.h
+++ b/sharedlistvector.h
@@ -15,8 +15,6 @@
 #include "globaldata.hpp"
 #include "sharedrabundvector.h"
 #include "sharedsabundvector.h"
-#include <iostream>
-#include <map>
 
 /* This class is a child to datavector.  It represents OTU information at a certain distance. 
        A sharedlistvector can be converted into a sharedordervector, sharedrabundvector or sharedsabundvectorand 
@@ -35,7 +33,7 @@ public:
        SharedListVector();
        SharedListVector(int);
        SharedListVector(ifstream&);
-       SharedListVector(const SharedListVector& lv) : DataVector(lv.label), data(lv.data), maxRank(lv.maxRank), numBins(lv.numBins), numSeqs(lv.numSeqs){};
+       SharedListVector(const SharedListVector& lv) : DataVector(lv.label), data(lv.data), maxRank(lv.maxRank), numBins(lv.numBins), numSeqs(lv.numSeqs){globaldata = GlobalData::getInstance();};
        ~SharedListVector(){};
        
        int getNumBins()                                                        {       return numBins;         }
@@ -56,6 +54,7 @@ public:
        SharedOrderVector* getSharedOrderVector();
        SharedRAbundVector getSharedRAbundVector(string);  //get sharedrabundvector for a certain group
        SharedSAbundVector getSharedSAbundVector(string);                       //get sharedsabundvector for a certain group
+       vector<SharedRAbundVector*> getSharedRAbundVector(); //returns sharedRabundVectors for all the users groups
        
 private:
        vector<string> data;  //data[i] is a list of names of sequences in the ith OTU.