Mark DePristo 7dcafe8b81 Preliminary version of LoglessCachingPairHMM that avoids positive likelihoods ... -- Would have been squashed but could not because of subsequent deletion of Caching and Exact/Original PairHMMs -- Actual working unit tests for PairHMMUnitTest -- Fixed incorrect logic in how I compared hmm results to the theoretical and exact results -- PairHMM has protected variables used throughout the subclasses		2013-02-09 13:06:54 -05:00
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net/sf	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
org/broadinstitute/sting	Preliminary version of LoglessCachingPairHMM that avoids positive likelihoods	2013-02-09 13:06:54 -05:00