X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=splitgroupscommand.h;h=ec22b8fedaec8752dd1b9161c6476b0223fc157e;hp=f8bdca17e2a06877a81d4d5eca2fcabd64cef52a;hb=df7e3ff9f68ef157b0328a2d353c3258c5d45d89;hpb=a44542a3c740cf957cff72ac71742f2fe48b0eaf

diff --git a/splitgroupscommand.h b/splitgroupscommand.h
index f8bdca1..ec22b8f 100644
--- a/splitgroupscommand.h
+++ b/splitgroupscommand.h
@@ -28,9 +28,11 @@ public:
 	~SplitGroupCommand() {}
 	
 	vector<string> setParameters();
-	string getCommandName()			{ return "split.group";				}
+	string getCommandName()			{ return "split.groups";				}
 	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();
 };
 
 /***************************************************************************************/