Mark DePristo e484625594 GenotypesContext now updates cached data for add, set, replace operations when possible ... -- Involved separately managing the sample -> offset and sample sorted list operations. This should improve performance throughout the system		2011-11-22 08:40:48 -05:00
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AlleleUnitTest.java	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
GenotypeLikelihoodsUnitTest.java	Updating MD5 to reflect canonical ordering of calculation	2011-11-19 15:57:33 -05:00
GenotypeUnitTest.java	Change interface to getNegLog10PError to getLog10PError	2011-11-18 21:07:30 -05:00
GenotypesContextUnitTest.java	GenotypesContext now updates cached data for add, set, replace operations when possible	2011-11-22 08:40:48 -05:00
VCFJarClassLoadingUnitTest.java	Modified the VCFJarClassLoadingUnitTest to play nice with the packaged-jar test targets.	2011-10-25 14:47:15 -04:00
VariantContextBenchmark.java	Change interface to getNegLog10PError to getLog10PError	2011-11-18 21:07:30 -05:00
VariantContextUnitTest.java	GenotypesContext no longer have immutability in constructor	2011-11-21 14:34:31 -05:00
VariantContextUtilsUnitTest.java	Bugfix for pError not being checked correctly in CommonInfo	2011-11-19 15:58:59 -05:00
VariantJEXLContextUnitTest.java	Killing the final versions of old new VariantContext interface	2011-11-18 21:32:43 -05:00