X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=distancecommand.h;fp=distancecommand.h;h=23cc6a580a16756d5b30420cb825b5d43d21ae83;hb=ca9ac1d80c62f57270b0dcd49410ebe08a8aecd6;hp=595483d2b3e84aef55478a78bd84906771949e5d;hpb=36a867cbd85d9c276d3c8d13f25a150bbbe2466b;p=mothur.git

diff --git a/distancecommand.h b/distancecommand.h
index 595483d..23cc6a5 100644
--- a/distancecommand.h
+++ b/distancecommand.h
@@ -22,13 +22,16 @@ class DistanceCommand : public Command {
 public:
 	DistanceCommand(string);
 	DistanceCommand();
-	~DistanceCommand();
-	vector<string> getRequiredParameters();
-	vector<string> getValidParameters();
-	vector<string> getRequiredFiles();
-	map<string, vector<string> > getOutputFiles() { return outputTypes; }
-	int execute();	
-	void help();
+	~DistanceCommand() {}
+	
+	vector<string> setParameters();
+	string getCommandName()			{ return "dist.seqs";			}
+	string getCommandCategory()		{ return "Sequence Processing";	}
+	string getHelpString();	
+	
+	int execute(); 
+	void help() { m->mothurOut(getHelpString()); }	
+	
 	
 private:
 	struct distlinePair {
@@ -49,7 +52,6 @@ private:
 	
 	bool abort;
 	vector<string>  Estimators, outputNames; //holds estimators to be used
-	map<string, vector<string> > outputTypes;
 	
 	//void m->appendFiles(string, string);
 	void createProcesses(string);