took out couts

[mothur.git] / splitabundcommand.h

diff --git a/splitabundcommand.h b/splitabundcommand.h
index fb8838063e408223df815f80844e51c04569c16a..2e409b2aedd7606b6c689f48cb9e0e58f7a0bcfe 100644 (file)
--- a/splitabundcommand.h
+++ b/splitabundcommand.h
@@ -28,7 +28,12 @@ class SplitAbundCommand : public Command {
        
 public:
        SplitAbundCommand(string);      
+       SplitAbundCommand();
        ~SplitAbundCommand();
+       vector<string> getRequiredParameters();
+       vector<string> getValidParameters();
+       vector<string> getRequiredFiles();
+       map<string, vector<string> > getOutputFiles() { return outputTypes; }
        int execute();  
        void help();
 
@@ -37,7 +42,7 @@ private:
        int splitList(ListVector*);
        int splitNames(); //namefile
        int writeNames(); 
-       int writeList(ListVector*); 
+       int writeList(ListVector*, string); 
        int writeAccnos(string); 
        int parseGroup(string); 
        int parseFasta(string); 
@@ -45,6 +50,7 @@ private:
        int createNameMap(ListVector*);
        
        vector<string> outputNames;
+       map<string, vector<string> > outputTypes;
        ListVector* list;
        GroupMap* groupMap;
        InputData* input;
@@ -54,7 +60,7 @@ private:
        vector<string> Groups;
        bool abort, allLines, accnos;
        int cutoff;
-       map<string, bool> wroteListFile;
+       //map<string, bool> wroteListFile;
        map<string, string> nameMap;