X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=summarycommand.h;h=895f9d7429deac952eab6a0bd29ee9fb07dd95a3;hp=135c4025ec15d0097c6bee83f239039bf22c83f4;hb=0470f6d037aacb3563c3f7010708120a4a67d4e6;hpb=bede5752eaeedb5a7e339439b6ba2f6670bca2b9

diff --git a/summarycommand.h b/summarycommand.h
index 135c402..895f9d7 100644
--- a/summarycommand.h
+++ b/summarycommand.h
@@ -33,9 +33,10 @@ class GlobalData;
 class SummaryCommand : public Command {
 
 public:
-	SummaryCommand();
+	SummaryCommand(string);
 	~SummaryCommand();
 	int execute();
+	void help();
 	
 private:
 	GlobalData* globaldata;
@@ -47,5 +48,14 @@ private:
 	string outputFileName;
 	ofstream outputFileHandle;
 	int abund, size;
+	OptionParser* parser;
+	map<string, string> parameters;
+	map<string, string>::iterator it;
+	bool abort, allLines;
+	set<int> lines; //hold lines to be used
+	set<string> labels; //holds labels to be used
+	string line, label, calc;
+	vector<string>  Estimators;
+
 };
 #endif