added some features to trim.seqs

[mothur.git] / trimseqscommand.h

diff --git a/trimseqscommand.h b/trimseqscommand.h
index 565d5283329124a65aca975d51a9588cb791670d..800ec3d047fac0221edde0dec47fb130058519ad 100644 (file)
--- a/trimseqscommand.h
+++ b/trimseqscommand.h
@@ -26,15 +26,14 @@ private:
        bool stripBarcode(Sequence&, string&);
        bool stripForward(Sequence&);
        bool stripReverse(Sequence&);
+       bool cullLength(Sequence&);
+       bool cullHomoP(Sequence&);
+       bool cullAmbigs(Sequence&);
        
        GlobalData* globaldata;
 
-       int totalBarcodeCount, matchBarcodeCount; // to be removed
-       int totalFPrimerCount, matchFPrimerCount; // to be removed
-       int totalRPrimerCount, matchRPrimerCount; // to be removed
-       
        bool oligos, flip;
-       int numFPrimers, numRPrimers;
+       int numFPrimers, numRPrimers, maxAmbig, maxHomoP, minLength, maxLength;
        vector<string> forPrimer, revPrimer;
        map<string, string> barcodes;
 };