X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=sharedordervector.h;h=3568450d3059e231c310e18e7073b434516f7c07;hb=134a9c1275862a6b3ea10a2c0f11965c0a535854;hp=94d91c5756da05a608253694a307ad6ea931baed;hpb=09a01fb51eea9e81409d367410c831394193fd86;p=mothur.git

diff --git a/sharedordervector.h b/sharedordervector.h
index 94d91c5..3568450 100644
--- a/sharedordervector.h
+++ b/sharedordervector.h
@@ -2,7 +2,7 @@
 #define SHAREDORDER_H
 /*
  *  sharedorder.h
- *  Dotur
+ *  Mothur
  *
  *  Created by Sarah Westcott on 12/9/08.
  *  Copyright 2008 Schloss Lab UMASS Amherst. All rights reserved.
@@ -15,22 +15,36 @@
 	the group it is in and the abundance is equal to the OTU number.  */
 
 
-using namespace std;
-
 #include "datavector.hpp"
 
 struct individual {
 		string group;
 		int bin;
 		int abundance;
+		bool operator()(const individual& i1, const individual& i2) {
+		return (i1.abundance > i2.abundance);
+		}
 };
 
+struct individualFloat {
+		string group;
+		int bin;
+		float abundance;
+		bool operator()(const individual& i1, const individual& i2) {
+		return (i1.abundance > i2.abundance);
+		}
+};
+
+
 #include "sabundvector.hpp"
 #include "rabundvector.hpp"
 #include "sharedrabundvector.h"
 #include "sharedsabundvector.h"
 #include "globaldata.hpp"
 #include "groupmap.h"
+//#include "globaldata.hpp"
+
+class GlobalData;
 
 class SharedOrderVector : public DataVector {
 	
@@ -43,15 +57,15 @@ public:
 	SharedOrderVector(ifstream&);
 	~SharedOrderVector(){};
 	
-	void set(int, int, int, string);	//index, OTU, abundance, group
+	
 	individual get(int);
-	void push_back(int, int, string);  //OTU, abundance, group
 	void resize(int);
 	int size();
 	void print(ostream&);
 	vector<individual>::iterator begin();
 	vector<individual>::iterator end();
-
+	void push_back(int, int, string);  //OTU, abundance, group  MUST CALL UPDATE STATS AFTER PUSHBACK!!!
+	void updateStats();
 
 	int getNumBins();
 	int getNumSeqs();
@@ -63,6 +77,7 @@ public:
 	SharedOrderVector getSharedOrderVector();
 	SharedRAbundVector getSharedRAbundVector(string);  //get the sharedRabundvector for a sepecific group
 	SharedSAbundVector getSharedSAbundVector(string);	//get the sharedSabundvector for a sepecific group
+	vector<SharedRAbundVector*> getSharedRAbundVector(); //returns sharedRabundVectors for all the users groups
 	
 private:
 	GlobalData* globaldata;
@@ -73,7 +88,8 @@ private:
 	int numBins;
 	int numSeqs;
 	bool needToUpdate;
-	void updateStats();
+	void set(int, int, int, string);	//index, OTU, abundance, group
+	
 };
 
 #endif