Mark DePristo 7df47418d8 BQSR optimization: make RecalibrationTables thread-local, and merge results in onTraversalDone ... -- With the newer, faster BQSR, scaling was limited by the NestedIntegerArray. The solution to this is to make the entire table thread-local, so that each nct thread has its own data and doesn't have any collisions. -- Removed the previous partial solution of having a thread-local quality score table -- Added a new argument -lowMemory		2013-01-04 11:39:24 -05:00
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config	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
src	BQSR optimization: make RecalibrationTables thread-local, and merge results in onTraversalDone	2013-01-04 11:39:24 -05:00
test	Unit tests for ProgressMeterDaemon	2013-01-04 11:39:24 -05:00