gatk3的最后一个经典版本3.8

Mark DePristo 7df47418d8 BQSR optimization: make RecalibrationTables thread-local, and merge results in onTraversalDone ... -- With the newer, faster BQSR, scaling was limited by the NestedIntegerArray. The solution to this is to make the entire table thread-local, so that each nct thread has its own data and doesn't have any collisions. -- Removed the previous partial solution of having a thread-local quality score table -- Added a new argument -lowMemory		2013-01-04 11:39:24 -05:00
licensing	Final final final version of the license.	2012-07-20 18:00:02 -04:00
protected/java	BQSR optimization: make RecalibrationTables thread-local, and merge results in onTraversalDone	2013-01-04 11:39:24 -05:00
public	BQSR optimization: make RecalibrationTables thread-local, and merge results in onTraversalDone	2013-01-04 11:39:24 -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	Re-enabling contracts in tests in build.xml	2013-01-02 11:29:25 -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