X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=chimeracheckcommand.h;fp=chimeracheckcommand.h;h=221d35fe504bea29e6757b35aadd9449703543ab;hb=ca9ac1d80c62f57270b0dcd49410ebe08a8aecd6;hp=6e81812e469772b18a737930354f1bdf943a9ef9;hpb=36a867cbd85d9c276d3c8d13f25a150bbbe2466b;p=mothur.git

diff --git a/chimeracheckcommand.h b/chimeracheckcommand.h
index 6e81812..221d35f 100644
--- a/chimeracheckcommand.h
+++ b/chimeracheckcommand.h
@@ -22,15 +22,17 @@ class ChimeraCheckCommand : public Command {
 public:
 	ChimeraCheckCommand(string);
 	ChimeraCheckCommand();
-	~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 getHelpString();	
+	
+	int execute(); 
+	void help() { m->mothurOut(getHelpString()); }	
+	
 	
-		
 private:
 
 	struct linePair {
@@ -56,8 +58,6 @@ private:
 	vector<string> fastaFileNames;
 	vector<string> nameFileNames;
 	vector<string> outputNames;
-	map<string, vector<string> > outputTypes;
-		
 };
 
 /***********************************************************/