gatk3的最后一个经典版本3.8
 
 
 
 
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Mark DePristo 0f04485c24 NanoScheduler optimization: don't use a PriorityBlockingQueue for the MapResultsQueue
-- Created a separate, limited interface MapResultsQueue object that previously was set to the PriorityBlockingQueue.
-- The MapResultsQueue is now backed by a synchronized ExpandingArrayList, since job ids are integers incrementing from 0 to N.  This means we avoid the n log n sort in the priority queue which was generating a lot of cost in the reduce step
-- Had to update ReducerUnitTest because the test itself was brittle, and broken when I changed the underlying code.
-- A few bits of minor code cleanup through the system (removing unused constructors, local variables, etc)
-- ExpandingArrayList called ensureCapacity so that we increase the size of the arraylist once to accommodate the upcoming size needs
2012-12-24 13:35:56 -05:00
licensing Final final final version of the license. 2012-07-20 18:00:02 -04:00
protected/java Optimization of BQSR 2012-12-24 13:35:09 -05:00
public NanoScheduler optimization: don't use a PriorityBlockingQueue for the MapResultsQueue 2012-12-24 13:35:56 -05:00
settings Final r119 tribble jar 2012-11-02 14:30:33 -04:00
.gitignore adding some directories to gitignore 2012-09-27 11:09:41 -04:00
build.xml Move VCF/BCF2/VariantContext to new standalone org.broadinstitute.variant package 2012-12-19 10:25:22 -05:00
intellij_example.tar.bz2 Removed the intellij files from the root and made an example package for new users. This allows users to start at the same page and then change it as they see fit without interfering with the repo (thanks guillermo!) 2012-09-27 11:04:56 -04:00
ivy.xml Use build jars in test classpaths by default 2012-11-28 22:57:04 -05:00