X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=collectcommand.h;h=8423b7b762233c549ce62283d5ecb800c7ceb08f;hb=fefd5ee1517abd3bc38b469cb2dffc85a1571c7e;hp=1d8734fa5d713ad4535e067af55d3c56d699573c;hpb=49d2b7459c5027557564b21e9487dadafbbbdc96;p=mothur.git

diff --git a/collectcommand.h b/collectcommand.h
index 1d8734f..8423b7b 100644
--- a/collectcommand.h
+++ b/collectcommand.h
@@ -38,8 +38,9 @@ public:
 	string getCommandName()			{ return "collect.single";			}
 	string getCommandCategory()		{ return "OTU-Based Approaches";	}
 	string getCitation() { return "Schloss PD, Handelsman J (2006). Introducing SONS, A tool that compares the membership of microbial communities. Appl Environ Microbiol 72: 6773-9. \nhttp://www.mothur.org/wiki/Collect.single"; }
-	string getOutputFileNameTag(string, string);
+	
 	string getHelpString();	
+    string getOutputPattern(string);	
 	string getDescription()		{ return "generates collector's curves using calculators, that describe the richness, diversity, and other features of individual samples"; }
 	
 	int execute(); 
@@ -51,7 +52,7 @@ private:
 	InputData* input;
 	Collect* cCurve;
 	vector<Display*> cDisplays;
-	int abund, size;
+	int abund, size, alpha;
 	float freq;
 	vector<string> outputNames;