X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=splitgroupscommand.h;h=b251fe55bc4fd010582c82297e8b757a0f17113e;hb=f12174bc43f9e8ad536f2a37fb3a763b1ac90ba9;hp=f8bdca17e2a06877a81d4d5eca2fcabd64cef52a;hpb=a44542a3c740cf957cff72ac71742f2fe48b0eaf;p=mothur.git

diff --git a/splitgroupscommand.h b/splitgroupscommand.h
index f8bdca1..b251fe5 100644
--- a/splitgroupscommand.h
+++ b/splitgroupscommand.h
@@ -30,7 +30,9 @@ public:
 	vector<string> setParameters();
 	string getCommandName()			{ return "split.group";				}
 	string getCommandCategory()		{ return "Sequence Processing";		}
+	
 	string getHelpString();	
+    string getOutputPattern(string);	
 	string getCitation() { return "http://www.mothur.org/wiki/Split.group"; }
 	string getDescription()		{ return "split a name or fasta file by group"; }
 
@@ -39,17 +41,14 @@ public:
 	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();
 };
 
 /***************************************************************************************/