added flag to count table read so that commands that don't require the group info...

[mothur.git] / countseqscommand.h

diff --git a/countseqscommand.h b/countseqscommand.h
index 555d6a74fa36fa034b6d0aafeb5f07bd0c4e7bbc..6ba36b1a0264e20efe7bd251bc8d505cdf30cb87 100644 (file)
--- a/countseqscommand.h
+++ b/countseqscommand.h
@@ -23,8 +23,9 @@ public:
        vector<string> setParameters();
        string getCommandName()                 { return "count.seqs";                          }
        string getCommandCategory()             { return "Sequence Processing";         }
-       string getOutputFileNameTag(string, string);
+       
        string getHelpString(); 
+    string getOutputPattern(string);   
        string getCitation() { return "http://www.mothur.org/wiki/Count.seqs"; }
        string getDescription()         { return "counts the number of sequences represented by each unique sequence in a namesfile"; }
 
@@ -36,6 +37,7 @@ private:
        string namefile, groupfile, outputDir, groups;
        bool abort, large;
        vector<string> Groups, outputNames;
+    int processors;
     
     int processSmall(string);
     int processLarge(string);