added namefile to align.check and added seqs from namefile to optimizing piece of...

[mothur.git] / trimflowscommand.h

diff --git a/trimflowscommand.h b/trimflowscommand.h
index 15c698c2ffe6075101ab1105ff60f579c349c425..7458dbe60b90f52c900e3ffd8fb645ccce0d0e86 100644 (file)
--- a/trimflowscommand.h
+++ b/trimflowscommand.h
@@ -61,11 +61,11 @@ private:
        bool allFiles;
        int processors;
        int numFPrimers, numRPrimers;
-       int totalFlows, minFlows, minLength, maxLength, maxHomoP, tdiffs, bdiffs, pdiffs;
+       int maxFlows, minFlows, minLength, maxLength, maxHomoP, tdiffs, bdiffs, pdiffs;
        int numFlows;
        float signal, noise;
        bool fasta;
-       
+       string flowOrder;       
        
        string flowFileName, oligoFileName, outputDir;