Eric Banks 2d518f3063 More RR-related updates and tests. ... - ReduceReads by default now sets up-front ReadWalker downsampling to 40x per start position. - This is the value I used in my tests with Picard to show that memory issues pretty much disappeared. - This should hopefully take care of the memory issues being reported on the forum. - Added javadocs to SlidingWindow (the main RR class) to follow GATK conventions. - Added more unit tests to increase coverage of BaseCounts class. - Added more unit tests to test I/D operators in the SlidingWindow class.		2013-02-04 12:57:43 -05:00
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gatk	More RR-related updates and tests.	2013-02-04 12:57:43 -05:00
utils	Swap java Random generator for GATK one to ensure test determinism	2013-02-04 10:57:34 -05:00