X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=consensusseqscommand.h;h=165d420f820d89c3015737e62cbda2226fbb07fc;hb=fefd5ee1517abd3bc38b469cb2dffc85a1571c7e;hp=e0c97150bfb0bc3e5baafcea911c4ba1c6c60dcb;hpb=6c2b1e530a5c0bb87040e58a3e410097acdfcc3d;p=mothur.git

diff --git a/consensusseqscommand.h b/consensusseqscommand.h
index e0c9715..165d420 100644
--- a/consensusseqscommand.h
+++ b/consensusseqscommand.h
@@ -24,8 +24,9 @@ public:
 	vector<string> setParameters();
 	string getCommandName()			{ return "consensus.seqs";		}
 	string getCommandCategory()		{ return "Sequence Processing"; }
-	string getOutputFileNameTag(string, string);
+	
 	string getHelpString();	
+    string getOutputPattern(string);	
 	string getCitation() { return "http://www.mothur.org/wiki/Consensus.seqs"; }
 	string getDescription()		{ return "create a consensus sequence for each OTU or for a fasta file"; }
 
@@ -43,7 +44,8 @@ private:
 	map<string, string> fastaMap;
 	map<string, string> nameMap;
 	map<string, int> nameFileMap;
-	int cutoff, seqLength;
+	int seqLength;
+    float cutoff;
 	
 	int readFasta();
 	int readNames();