added set.dir command and modified commands to redirect input and output, removed...

[mothur.git] / preclustercommand.h

diff --git a/preclustercommand.h b/preclustercommand.h
index 5113fa44e0e5b848a22d52c6c8c03f29a646ffd0..3a1157d1979935e990f45e1f3202d4fe74525574 100644 (file)
--- a/preclustercommand.h
+++ b/preclustercommand.h
@@ -38,7 +38,7 @@ public:
 private:
        int diffs, length;
        bool abort;
-       string fastafile, namefile;
+       string fastafile, namefile, outputDir;
        vector<seqPNode> alignSeqs; //maps the number of identical seqs to a sequence
 //     map<string, string> names; //represents the names file first column maps to second column
 //     map<string, int> sizes;  //this map a seq name to the number of identical seqs in the names file