Mark DePristo 8562bfaae1 Optimize GenomeLocParser.createGenomeLoc ... -- The new version is roughly 2x faster than the previous version. The key here was to cleanup the workflow for validateGenomeLoc and remove the now unnecessary synchronization blocks from the CachingSequencingDictionary, since these are now thread local variables -- #resolves https://jira.broadinstitute.org/browse/GSA-724		2013-01-30 09:47:47 -05:00
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commandline	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
gatk	Collapse the downsampling fork in the GATK engine	2013-01-28 01:50:30 -05:00
jna	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
utils	Optimize GenomeLocParser.createGenomeLoc	2013-01-30 09:47:47 -05:00
BaseTest.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
MD5DB.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
MD5Mismatch.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
StingTextReporter.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
TestNGTestTransformer.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
WalkerTest.java	Move some VCF/VariantContext methods back to the GATK based on feedback	2013-01-29 16:56:55 -05:00