changes while testing

[mothur.git] / listseqscommand.h

diff --git a/listseqscommand.h b/listseqscommand.h
index f814d8487d81fc98e98f2245ee13c5564ec5424b..b8a79c06035825fd92050a1e0c610ac6b77bd122 100644 (file)
--- a/listseqscommand.h
+++ b/listseqscommand.h
@@ -23,7 +23,9 @@ class ListSeqsCommand : public Command {
                vector<string> setParameters();
                string getCommandName()                 { return "list.seqs";                           }
                string getCommandCategory()             { return "Sequence Processing";         }
-               string getHelpString(); 
+               
+       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"; }
 
@@ -33,7 +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;
                bool abort;
                
                int readFasta();
@@ -42,6 +44,7 @@ class ListSeqsCommand : public Command {
                int readAlign();
                int readList();
                int readTax();
+        int readCount();
                
 };