X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=rarefactsharedcommand.h;h=a210574002969c411be4d9e9c705af9d88c980f0;hb=e0ce7cbc93d7d2fbb753ca694182db092a0ea0e7;hp=1a2d944894feabe26b4103e5431c0da08c6574b4;hpb=ffc44592ff7ae94f14f9e21f87198e33d323cd1d;p=mothur.git

diff --git a/rarefactsharedcommand.h b/rarefactsharedcommand.h
index 1a2d944..a210574 100644
--- a/rarefactsharedcommand.h
+++ b/rarefactsharedcommand.h
@@ -40,12 +40,14 @@ private:
 	string format;
 	float freq;
 	
-	bool abort, allLines, jumble;
+     map<int, string> file2Group; //index in outputNames[i] -> group
+	bool abort, allLines, jumble, groupMode;
 	set<string> labels; //holds labels to be used
 	string label, calc, groups, outputDir, sharedfile, designfile;
 	vector<string>  Estimators, Groups, outputNames, Sets;
     
     int process(GroupMap&, string);
+    vector<string> createGroupFile(vector<string>&);
 
 };