sped up splitting of distance file by 2.5 times by buffering the read and writes.

[mothur.git] / mgclustercommand.h

diff --git a/mgclustercommand.h b/mgclustercommand.h
index 2ac80c91dd65fa7cf56f71331e4c4486c68c8b87..4ef0bd90de3de904e51556e87e31163f4d08d0c7 100644 (file)
--- a/mgclustercommand.h
+++ b/mgclustercommand.h
@@ -38,11 +38,12 @@ private:
        ListVector oldList;
        vector<seqDist> overlapMatrix;
        
-       string blastfile, method, namefile, overlapFile, distFile;
+       string blastfile, method, namefile, overlapFile, distFile, outputDir;
        ofstream sabundFile, rabundFile, listFile;
-       float cutoff, penalty;
+       double cutoff;
+       float penalty;
        int precision, length, precisionLength;
-       bool abort, minWanted, hclusterWanted, merge;
+       bool abort, minWanted, hclusterWanted, merge, hard;
        
        void printData(ListVector*);
        ListVector* mergeOPFs(map<string, int>, float);