X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=countgroupscommand.h;h=cd226a3da2c02107f4512acc126b067d195dfb8c;hp=2532a80eca171fefd776e3722474084e42a1f396;hb=cf9987b67aa49777a4c91c2d21f96e58bf17aa82;hpb=0caf3fbabaa3ece404f8ce77f4c883dc5b1bf1dc

diff --git a/countgroupscommand.h b/countgroupscommand.h
index 2532a80..cd226a3 100644
--- a/countgroupscommand.h
+++ b/countgroupscommand.h
@@ -24,6 +24,7 @@ public:
 	string getCommandName()			{ return "count.groups";			}
 	string getCommandCategory()		{ return "Sequence Processing";		}
 	string getHelpString();	
+    string getOutputPattern(string);	
 	string getCitation() { return "http://www.mothur.org/wiki/Count.groups"; }
 	string getDescription()		{ return "counts the number of sequences in each group"; }
 	
@@ -32,11 +33,10 @@ public:
 	
 	
 private:
-	string sharedfile, groupfile, outputDir, groups, accnosfile;
+	string sharedfile, groupfile, countfile, outputDir, groups, accnosfile;
 	bool abort;
 	vector<string> Groups;
-	
-	void readAccnos();
+    vector<string> outputNames;
 };
 
 #endif