implemented PrintStreamProgressBar and updated ParsingEngine to report ProgressEvents through it. The PrintStreamProgressBar reports progress on the command line. Also updated NegativeControlGenerator to report progress.
Fixed bug with data args component where the selection panel was incorrectly enabled
fixed bug in genome util readFromGenome() method with peak summits. Peaks are now correctly adjusted according to their summits.
BasicGenomeReader now reports the percent of queries processed rather than being indeterminant.
Added MaximumOverlapArgument to ProbeMutator. ProbeMutator also reports percent completion.