X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=getseqscommand.h;fp=getseqscommand.h;h=07d13d6703426e1990fab1a1bc9afdb82124c801;hb=ca9ac1d80c62f57270b0dcd49410ebe08a8aecd6;hp=aef789aa7dd80a656a66c3061a2e8cadd1fe081b;hpb=36a867cbd85d9c276d3c8d13f25a150bbbe2466b;p=mothur.git

diff --git a/getseqscommand.h b/getseqscommand.h
index aef789a..07d13d6 100644
--- a/getseqscommand.h
+++ b/getseqscommand.h
@@ -18,20 +18,22 @@ class GetSeqsCommand : public Command {
 	
 		GetSeqsCommand(string);
 		GetSeqsCommand();
-		~GetSeqsCommand(){};
-		vector<string> getRequiredParameters();
-		vector<string> getValidParameters();
-		vector<string> getRequiredFiles();
-		map<string, vector<string> > getOutputFiles() { return outputTypes; }
-		int execute();
-		void help();	
-		
+		~GetSeqsCommand(){}
+	
+		vector<string> setParameters();
+		string getCommandName()			{ return "get.seqs";				}
+		string getCommandCategory()		{ return "Sequence Processing";		}
+		string getHelpString();	
+	
+		int execute(); 
+		void help() { m->mothurOut(getHelpString()); }	
+	
+	
 	private:
 		set<string> names;
 		vector<string> outputNames;
 		string accnosfile, accnosfile2, fastafile, namefile, groupfile, alignfile, listfile, taxfile, qualfile, outputDir;
 		bool abort, dups;
-		map<string, vector<string> > outputTypes;
 		
 		int readFasta();
 		int readName();