- ~ChimeraCheckCommand();
- vector<string> getRequiredParameters();
- vector<string> getValidParameters();
- vector<string> getRequiredFiles();
- map<string, vector<string> > getOutputFiles() { return outputTypes; }
- int execute();
- void help();
+ ~ChimeraCheckCommand(){}
+
+ vector<string> setParameters();
+ string getCommandName() { return "chimera.check"; }
+ string getCommandCategory() { return "Sequence Processing"; }
+ string getOutputFileNameTag(string, string);
+ string getHelpString();
+ string getCitation() { return "CHIMERA_CHECK version 2.7 written by Niels Larsen (http://wdcm.nig.ac.jp/RDP/docs/chimera_doc.html) \nhttp://www.mothur.org/wiki/Chimera.check"; }
+ string getDescription() { return "detect chimeric sequences"; }
+
+ int execute();
+ void help() { m->mothurOut(getHelpString()); }
+