- GlobalData* globaldata;
-
- int totalBarcodeCount, matchBarcodeCount;
- int totalFPrimerCount, matchFPrimerCount;
- int totalRPrimerCount, matchRPrimerCount;
-
-
- bool oligos, flip;
- int forwardPrimerMismatch, reversePrimerMismatch, barcodeMismatch;
- int numFPrimers, numRPrimers;
+ bool flip, allFiles;
+ int numFPrimers, numRPrimers, maxAmbig, maxHomoP, minLength, maxLength, qThreshold, qAverage;