X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=sensspeccommand.h;h=7d85a39bea25ced837551589cf21e2c431c8d7ca;hb=1a968f34ae2d2680eaf189a197d1a21b8dfd6c03;hp=a5072e80c4bd908ed63d0f1ab34c83a5285b2e95;hpb=49d2b7459c5027557564b21e9487dadafbbbdc96;p=mothur.git

diff --git a/sensspeccommand.h b/sensspeccommand.h
index a5072e8..7d85a39 100644
--- a/sensspeccommand.h
+++ b/sensspeccommand.h
@@ -26,9 +26,10 @@ public:
 	vector<string> setParameters();
 	string getCommandName()			{ return "sens.spec";				}
 	string getCommandCategory()		{ return "OTU-Based Approaches";	}
-	string getOutputFileNameTag(string, string);
+	
 	string getHelpString();	
-	string getCitation() { return "Schloss PD, Westcott SL (2011). Assessing and improving methods used in OTU-based approaches for 16S rRNA gene sequence analysis. Appl Environ Microbiol. \nhttp://www.mothur.org/wiki/Sens.spec"; }
+    string getOutputPattern(string);	
+	string getCitation() { return "Schloss PD, Westcott SL (2011). Assessing and improving methods used in OTU-based approaches for 16S rRNA gene sequence analysis. Appl Environ Microbiol 77:3219.\nhttp://www.mothur.org/wiki/Sens.spec"; }
 	string getDescription()		{ return "sens.spec"; }
 
 	int execute(); 
@@ -57,6 +58,7 @@ private:
 	int fillSeqPairSet(set<string>&, ListVector*&);
 	int process(map<string, int>&, string, bool&, string&);
 	int process(set<string>&, string, bool&, string&, int);
+    string preProcessList();
 
 };