ebanks 54c61c663c -Cleanup of the Joint Estimation code ... -Don't print verbose/debugging output to logger, but instead specify a file in the argument collection (and then we only need to print conditionally) git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1899 348d0f76-0448-11de-a6fe-93d51630548a		2009-10-22 15:25:29 +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/org/broadinstitute/sting	-Cleanup of the Joint Estimation code	2009-10-22 15:25:29 +00:00
test/org/broadinstitute/sting	Base transition table now forces epsilon/3 (three-state) model for the unified genotyper. Verified to be identical with changing the default model to being epsilon/3. This of course changes the observed counts, so the integration test has been updated.	2009-10-21 21:18:26 +00:00