X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=listseqscommand.h;h=9d320d9e9a94ad031826bc547d42a03b30e8ec30;hp=1a31a6dd432e837159be8d916f7ce2a25e4d4dec;hb=cf9987b67aa49777a4c91c2d21f96e58bf17aa82;hpb=f687723a8357916e86a05116978e6869b039ce36

diff --git a/listseqscommand.h b/listseqscommand.h
index 1a31a6d..9d320d9 100644
--- a/listseqscommand.h
+++ b/listseqscommand.h
@@ -23,8 +23,9 @@ class ListSeqsCommand : public Command {
 		vector<string> setParameters();
 		string getCommandName()			{ return "list.seqs";				}
 		string getCommandCategory()		{ return "Sequence Processing";		}
-		string getOutputFileNameTag(string, string);
+		
 	string getHelpString();	
+    string getOutputPattern(string);	
 		string getCitation() { return "http://www.mothur.org/wiki/List.seqs"; }
 		string getDescription()		{ return "lists sequences from a list, fasta, name, group, alignreport or taxonomy file"; }
 
@@ -34,7 +35,7 @@ class ListSeqsCommand : public Command {
 	
 	private:
 		vector<string> names, outputNames;
-		string fastafile, namefile, groupfile, alignfile, inputFileName, outputDir, listfile, taxfile;
+		string fastafile, namefile, groupfile, countfile, alignfile, inputFileName, outputDir, listfile, taxfile, fastqfile;
 		bool abort;
 		
 		int readFasta();
@@ -43,7 +44,8 @@ class ListSeqsCommand : public Command {
 		int readAlign();
 		int readList();
 		int readTax();
-		
+        int readCount();
+        int readFastq();
 };
 
 #endif