fixed metastats, added resize to cluster.classic, added code to kill children if...

[mothur.git] / getsabundcommand.h

diff --git a/getsabundcommand.h b/getsabundcommand.h
index dcda3aafd7ff5a6c53cd2534a342aabba4a42215..b5363e1bce548af4af74408593d855cac4da973c 100644 (file)
--- a/getsabundcommand.h
+++ b/getsabundcommand.h
@@ -21,7 +21,12 @@ class GlobalData;
 class GetSAbundCommand : public Command {
 public:
        GetSAbundCommand(string);
+       GetSAbundCommand();
        ~GetSAbundCommand();
+       vector<string> getRequiredParameters();
+       vector<string> getValidParameters();
+       vector<string> getRequiredFiles();
+       map<string, vector<string> > getOutputFiles() { return outputTypes; }
        int execute();
        void help();
        
@@ -31,14 +36,14 @@ private:
        ofstream out;
        ReadOTUFile* read;
        OrderVector* order;
-       OrderVector* lastOrder;
        InputData* input;
        SAbundVector* sabund;
+       vector<string> outputNames;
+       map<string, vector<string> > outputTypes;
 
        bool abort, allLines;
-       set<int> lines; //hold lines to be used
        set<string> labels; //holds labels to be used
-       string line, label;
+       string label;
 
 };