added an alignreport option to screen seqs

[mothur.git] / screenseqscommand.h

diff --git a/screenseqscommand.h b/screenseqscommand.h
index eab66ee23d5c0d07a6498b67ab130fb8a7622f4d..269275d38409c251ef3f9b0b1c2552602367f348 100644 (file)
--- a/screenseqscommand.h
+++ b/screenseqscommand.h
@@ -23,9 +23,10 @@ public:
 private:
        void screenNameGroupFile(set<string>);
        void screenGroupFile(set<string>);
-
+       void screenAlignReport(set<string>);
+       
        bool abort;
-       string fastafile, namefile, groupfile;
+       string fastafile, namefile, groupfile, alignreport;
        int startPos, endPos, maxAmbig, maxHomoP, minLength, maxLength;
 };