X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=splitgroupscommand.h;h=62e063d8a0fe93c3942959527cde646996e3430d;hb=e8e13c129ba8184ec5932a090773f353f3ae3406;hp=6705ba98e3ab9ebd165429260828632eca43ede4;hpb=ca9ac1d80c62f57270b0dcd49410ebe08a8aecd6;p=mothur.git

diff --git a/splitgroupscommand.h b/splitgroupscommand.h
index 6705ba9..62e063d 100644
--- a/splitgroupscommand.h
+++ b/splitgroupscommand.h
@@ -30,23 +30,24 @@ public:
 	vector<string> setParameters();
 	string getCommandName()			{ return "split.group";				}
 	string getCommandCategory()		{ return "Sequence Processing";		}
+	string getOutputFileNameTag(string, string);
 	string getHelpString();	
+	string getCitation() { return "http://www.mothur.org/wiki/Split.group"; }
+	string getDescription()		{ return "split a name or fasta file by group"; }
+
 	
 	int execute(); 
 	void help() { m->mothurOut(getHelpString()); }	
 	
 private:
-	int readNames(); 
-	int splitFasta(); 
-	
 	vector<string> outputNames;
-	map<string, vector<string> > nameMap;
-	map<string, vector<string> >::iterator itNames;
-	GroupMap* groupMap;
-	
-	string outputDir, namefile, groupfile, groups, fastafile;
+		
+	string outputDir, namefile, groupfile, countfile, groups, fastafile;
 	vector<string> Groups;
 	bool abort;
+    
+    int runNameGroup();
+    int runCount();
 };
 
 /***************************************************************************************/