merged pat's trim seqs edits with sarah's major overhaul of global data; also added...

[mothur.git] / getrabundcommand.h

diff --git a/getrabundcommand.h b/getrabundcommand.h
index 66a3211296edc7f2105af0ba2bfc10f85b7ae109..38b5ec7643fdd4e79e4d70408c59ba9fe3210be0 100644 (file)
--- a/getrabundcommand.h
+++ b/getrabundcommand.h
@@ -20,9 +20,10 @@ class GlobalData;
 
 class GetRAbundCommand : public Command {
 public:
-       GetRAbundCommand();
+       GetRAbundCommand(string);
        ~GetRAbundCommand();
        int execute();
+       void help();
        
 private:
        GlobalData* globaldata;
@@ -32,6 +33,13 @@ private:
        InputData* input;
        ListVector* list;
        RAbundVector* rabund;
+
+       bool abort, allLines;
+       set<int> lines; //hold lines to be used
+       set<string> labels; //holds labels to be used
+       string line, label;
+
+       
 };
 
 #endif