added zscore method to normalize.shared

[mothur.git] / getrabundcommand.h

diff --git a/getrabundcommand.h b/getrabundcommand.h
index 66a3211296edc7f2105af0ba2bfc10f85b7ae109..e853ac5f913a1d758e7a633510478ad30449feec 100644 (file)
--- a/getrabundcommand.h
+++ b/getrabundcommand.h
@@ -20,9 +20,15 @@ class GlobalData;
 
 class GetRAbundCommand : public Command {
 public:
+       GetRAbundCommand(string);
        GetRAbundCommand();
        ~GetRAbundCommand();
+       vector<string> getRequiredParameters();
+       vector<string> getValidParameters();
+       vector<string> getRequiredFiles();
+       map<string, vector<string> > getOutputFiles() { return outputTypes; }
        int execute();
+       void help();
        
 private:
        GlobalData* globaldata;
@@ -32,6 +38,14 @@ private:
        InputData* input;
        ListVector* list;
        RAbundVector* rabund;
+       vector<string> outputNames;
+       map<string, vector<string> > outputTypes;
+
+       bool abort, allLines, sorted;
+       set<string> labels; //holds labels to be used
+       string label;
+
+       
 };
 
 #endif