Mark DePristo bf81db40f7 NanoScheduler reducer optimizations ... -- reduceAsMuchAsPossible no longer blocks threads via synchronization, but instead uses an explicit lock to manage access. If the lock is already held (because some thread is doing reduce) then the thread attempting to reduce immediately exits the call and continues doing productive work. They removes one major source of blocking contention in the NanoScheduler		2012-12-24 13:35:57 -05:00
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commandline	Move VCF/BCF2/VariantContext to new standalone org.broadinstitute.variant package	2012-12-19 10:25:22 -05:00
gatk	Added functionality of outputting sorted GATKReport Tables	2012-12-20 14:02:21 -05:00
jna	Updated hard limit MathUtils.MAXN number of samples from 11,000 to 50,000.	2012-05-29 11:18:22 -04:00
utils	NanoScheduler reducer optimizations	2012-12-24 13:35:57 -05:00
BaseTest.java	Extensive unit tests, contacts, and documentation for RecalDatum	2012-07-31 08:11:03 -04:00
MD5DB.java	Finalizing BCF2 mark III commit	2012-06-21 15:16:27 -04:00
MD5Mismatch.java	Final updates to integration tests for BCF2	2012-05-24 10:58:59 -04:00
StingTextReporter.java	…
TestNGTestTransformer.java	Add custom TestNGTestTransformer that adds a maximum test runtime of 10 minutes to all testng tests	2012-11-01 15:34:12 -04:00
WalkerTest.java	Move VCF/BCF2/VariantContext to new standalone org.broadinstitute.variant package	2012-12-19 10:25:22 -05:00