X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=heatmapcommand.h;h=47838d80bb6f8cded11793bc7ed7ef942f9f8ec9;hb=30f2d98fffb579b870c8969ddcc1dfc61ccbb70a;hp=edb346021ec9effb6669029e7835be3d98e93e41;hpb=154e089bcd37c2c2f773e53ffb88a20170b27037;p=mothur.git

diff --git a/heatmapcommand.h b/heatmapcommand.h
index edb3460..47838d8 100644
--- a/heatmapcommand.h
+++ b/heatmapcommand.h
@@ -16,29 +16,32 @@
 #include "readotu.h"
 #include "sharedlistvector.h"
 #include "heatmap.h"
-#include "sharedutilities.h"
-
+#include "rabundvector.hpp"
 
 class GlobalData;
 
-
 class HeatMapCommand : public Command {
 
 public:
-	HeatMapCommand();
+	HeatMapCommand(string);
 	~HeatMapCommand();
 	int execute();
+	void help();
 	
 private:
 	GlobalData* globaldata;
 	ReadOTUFile* read;
-	SharedUtil* util;
 	InputData* input;
 	SharedListVector* SharedList;
-	SharedOrderVector* order;
-	OrderVector* ordersingle;
+	RAbundVector* rabund;
+	vector<SharedRAbundVector*> lookup;
 	HeatMap* heatmap;
-	string format;
+
+	bool abort, allLines;
+	set<string> labels; //holds labels to be used
+	string format, groups, sorted, scale, label, outputDir;
+	vector<string> Groups, outputNames;
+
 
 };