fixes while testing 1.33.0

[mothur.git] / parselistscommand.h

diff --git a/parselistscommand.h b/parselistscommand.h
index 9489b9b29108ed13969352c6ed1fe3a994e7f326..48b53a69d8141efbedc7373de2d770d53bace282 100644 (file)
--- a/parselistscommand.h
+++ b/parselistscommand.h
@@ -26,8 +26,11 @@ public:
        vector<string> setParameters();
        string getCommandName()                 { return "parse.list";                          }
        string getCommandCategory()             { return "OTU-Based Approaches";        }
+       
        string getHelpString(); 
+    string getOutputPattern(string);   
        string getCitation() { return "http://www.mothur.org/wiki/Parse.list"; }
+       string getDescription()         { return "parses a list file by group"; }
        
        int execute(); 
        void help() { m->mothurOut(getHelpString()); }  
@@ -37,16 +40,13 @@ 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;
-       
-       map<string, ofstream*> filehandles;
-       map<string, ofstream*>::iterator it3;
 
 };