hanna cba18116e4 A significant refactoring of the ROD system, done largely to simplify the process of ... streaming/piping VCFs into the GATK. Notable changes: - Public interface to RMDTrackBuilder is greatly simplified; users can use it only to build RMDTracks and lookup codecs. - RODDataSource and RMDTrack are no longer functionally at the same level; RODDataSources now manage RMDTracks on behalf of the GATK, and the only direct consumers of the RMDTrack class are the walkers that feel the need to access the ROD system directly. (We need to stamp out this access pattern. A few minor warts were introduced as part of this process, labeled with TODOs. These'll be fixed as part of the VCF streaming project. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4915 348d0f76-0448-11de-a6fe-93d51630548a		2010-12-31 04:52:22 +00:00
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net/sf/picard/reference	Changing testing framework from junit -> testng, for its enhanced configurability.	2010-11-01 21:31:44 +00:00
org/broadinstitute/sting	A significant refactoring of the ROD system, done largely to simplify the process of	2010-12-31 04:52:22 +00:00