mods to shhh.seqs and trim.flows to fix eye candy output

[mothur.git] / shhhercommand.h

diff --git a/shhhercommand.h b/shhhercommand.h
index dba4d68917e9027edc8d8888de82b2e6938e9256..a95815fd154be1027d79cb33861c733be207ef1d 100644 (file)
--- a/shhhercommand.h
+++ b/shhhercommand.h
@@ -33,7 +33,7 @@ private:
        
        int abort;
        
-       string outputDir, flowFileName, flowFilesFileName, lookupFileName, compositeFASTAFileName;
+       string outputDir, flowFileName, flowFilesFileName, lookupFileName, compositeFASTAFileName, compositeNamesFileName;
 
        int processors, maxIters;
        float cutoff, sigma, minDelta;
@@ -66,7 +66,9 @@ private:
        vector<int> mapSeqToUnique;
        vector<int> mapUniqueToSeq;
        vector<int> uniqueLengths;
-       
+
+       vector<string> outputNames;
+
        int numSeqs, numUniques, numOTUs, numFlowCells;
        
        void getSingleLookUp();