changes while setting up test files

[mothur.git] / chimerabellerophoncommand.h

diff --git a/chimerabellerophoncommand.h b/chimerabellerophoncommand.h
index e450b52bbe3326f5677cd914f0fa19c9c7970962..867d3618888e37079ed7e61cc44e5a869924ab04 100644 (file)
--- a/chimerabellerophoncommand.h
+++ b/chimerabellerophoncommand.h
@@ -20,9 +20,17 @@
 class ChimeraBellerophonCommand : public Command {
 public:
        ChimeraBellerophonCommand(string);
-       ~ChimeraBellerophonCommand();
-       int execute();
-       void help();
+       ChimeraBellerophonCommand();
+       ~ChimeraBellerophonCommand(){}
+       
+       vector<string> setParameters();
+       string getCommandName()                 { return "chimera.bellerophon"; }
+       string getCommandCategory()             { return "Sequence Processing"; }
+       string getHelpString(); 
+       
+       int execute(); 
+       void help() { m->mothurOut(getHelpString()); }  
+       
                
 private:
 
@@ -30,6 +38,8 @@ private:
        string fastafile, outputDir;
        int processors, window, increment, numSeqs;
        Chimera* chimera;
+       vector<string> outputNames;
+       vector<string> fastaFileNames;
 };
 
 /***********************************************************/