- int numFlows, numFPrimers, numRPrimers, processors;
- float signal, noise;
+ int numFlows, numFPrimers, numRPrimers, processors, maxIters, largeSize;
+ float signal, noise, cutoff, sigma, minDelta;
+ int qWindowSize, qWindowStep, keepFirst, removeLast, maxAmbig;
+ double qRollAverage, qThreshold, qWindowAverage, qAverage;