hanna d4d3170436 Support for '-L unmapped' in read walkers. DO NOT USE THIS PATCH YET. It has been ... subjected to and passes cursory testing on one dataset (and all integration tests pass). However, there's a small library of validation checks, and unit and integration tests that must be added. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4813 348d0f76-0448-11de-a6fe-93d51630548a		2010-12-09 19:51:48 +00:00
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config	Provide a default logger, some config settings, and some doc updates.	2009-04-29 02:06:05 +00:00
src	Support for '-L unmapped' in read walkers. DO NOT USE THIS PATCH YET. It has been	2010-12-09 19:51:48 +00:00
test	Better testing of BAQ. Now really handles soft clipped reads properly by doing an expensive copy operation :-( will need to be transformed to a ByteBuffer in the near future.	2010-12-08 17:37:00 +00:00