changes while testing

[mothur.git] / parselistscommand.h

diff --git a/parselistscommand.h b/parselistscommand.h
index 1faeaeb9f31f13ce0b3a5e4f1fbbe1f524ac6501..84abc85d46e0bc3fddd916a0095c4b45aa44dbd1 100644 (file)
--- a/parselistscommand.h
+++ b/parselistscommand.h
@@ -26,8 +26,9 @@ public:
        vector<string> setParameters();
        string getCommandName()                 { return "parse.list";                          }
        string getCommandCategory()             { return "OTU-Based Approaches";        }
-       string getOutputFileNameTag(string, string);
+       
        string getHelpString(); 
+    string getOutputPattern(string);   
        string getCitation() { return "http://www.mothur.org/wiki/Parse.list"; }
        string getDescription()         { return "parses a list file by group"; }
        
@@ -39,10 +40,10 @@ private:
                
        ListVector* list;
        GroupMap* groupMap;
-       InputData* input;
+    CountTable ct;
        
        ofstream out;
-       string outputDir, listfile, groupfile, label;
+       string outputDir, listfile, groupfile, label, countfile;
        set<string> labels;
        bool abort, allLines;
        vector<string> outputNames;