X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=heatmapcommand.h;h=a85d510074c55a73adc25b07f16a8a81bdd4a30c;hb=e6c4a7223199d800d496356604eb34dfe273673d;hp=fc50554c601c3c897f949775de7743c94cf33c9a;hpb=d59f91eb1230d2c7867a92cb86138b7003100ab4;p=mothur.git

diff --git a/heatmapcommand.h b/heatmapcommand.h
index fc50554..a85d510 100644
--- a/heatmapcommand.h
+++ b/heatmapcommand.h
@@ -23,9 +23,15 @@ class GlobalData;
 class HeatMapCommand : public Command {
 
 public:
+	HeatMapCommand(string);
 	HeatMapCommand();
 	~HeatMapCommand();
+	vector<string> getRequiredParameters();
+	vector<string> getValidParameters();
+	vector<string> getRequiredFiles();
+	map<string, vector<string> > getOutputFiles() { return outputTypes; }
 	int execute();
+	void help();
 	
 private:
 	GlobalData* globaldata;
@@ -34,8 +40,16 @@ private:
 	SharedListVector* SharedList;
 	RAbundVector* rabund;
 	vector<SharedRAbundVector*> lookup;
+	vector<SharedRAbundFloatVector*> lookupFloat;
 	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;
+	map<string, vector<string> > outputTypes;
+	int numOTU, fontSize;
+
 
 };