Mark DePristo c7864c7256 Filter application order is now deterministic, in the order defined by the walker ... -- For no apparent reason we were using a HashSet to store the ReadFilters, so the order of operations was really arbitrarily applied. The order now is (1) the order of the walker intrinsic filters (2) read group black list (if provided) (3) command line filters (if provided)		2011-10-06 18:51:40 -07:00
..
config	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
src	Filter application order is now deterministic, in the order defined by the walker	2011-10-06 18:51:40 -07:00
test	Updating MD5s for updated BAM with read groups	2011-10-06 12:15:48 -07:00