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Ernesto Brau e8b42c4dfd Use GKL's implementation of Vector Logless Pair HMM 
Fixed MuTect2 tests by removing old -alwaysloadVectorHmm flag; upgraded to GKL 0.5.2; FASTEST_AVAILABLE pairhmm option; improved documenting comments in code

Made FASTEST_AVAIALABLE the default for the pairHMM cmdline argument

Make LOGLESS_CACHING the default pairHMM unified cmdline argument, fix error message if choose an unrecognized pairHMM

Updae MD5s
 		2017-06-07 13:33:32 -04:00
..
gatk-package-distribution Update pom versions to mark the start of GATK 3.8 development 2016-12-12 08:53:23 -05:00
gatk-queue-extensions-distribution Remove obsolete unmapped reads test for FindCoveredIntervals (#1580) 2017-05-02 08:50:12 -04:00
gatk-queue-package-distribution Update pom versions to mark the start of GATK 3.8 development 2016-12-12 08:53:23 -05:00
gatk-tools-protected Use GKL's implementation of Vector Logless Pair HMM 2017-06-07 13:33:32 -04:00
pom.xml Update pom versions to mark the start of GATK 3.8 development 2016-12-12 08:53:23 -05:00