gatk3的最后一个经典版本3.8

Mark DePristo a4334a67e0 SamplePartitioner optimizations and bugfixes ... -- Use a linked hash map instead of a hash map since we want to iterate through the map fairly often -- Ensure that we call doneSubmittingReads before getting reads for samples. This function call fell out before and since it wasn't enforced I only noticed the problem while writing comments -- Don't make unnecessary calls to contains for map. Just use get() and check that the result is null -- Use a LinkedList in PassThroughDownsampler, since this is faster for add() than the existing ArrayList, and we were's using random access to any resulting		2013-01-14 16:30:16 -05:00
licensing	Cleaning CRLF terminations in the licenses	2013-01-10 17:06:29 -05:00
protected/java	Merge branch 'master' of gsa2:/humgen/gsa-scr1/chartl/dev/unstable	2013-01-14 13:27:34 -05:00
public	SamplePartitioner optimizations and bugfixes	2013-01-14 16:30:16 -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	Updating Queue maven version to 0.0.2	2013-01-10 13:46:49 -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	ReadBackedPileup cleanup	2013-01-11 15:17:18 -05:00