gatk3的最后一个经典版本3.8

Eric Banks 4b1071a815 Merge pull request #68 from broadinstitute/aw_reduce_reads_perf ... Eliminate 7-element arrays in BaseCounts and BaseAndQualsCount and repla...		2013-02-27 10:03:36 -08:00
licensing	Removing the symlink from the private license file	2013-02-09 12:57:44 -05:00
protected	Eliminate 7-element arrays in BaseCounts and BaseAndQualsCount and replace with in-line primitive attributes. This is ugly but reduces heap overhead, and changes are localized. When used in conjunction with Mauricio's FastUtil changes it saves and additional 9% or so of execution time.	2013-02-27 12:49:56 -05:00
public	Merged bug fix from Stable into Unstable	2013-02-27 05:20:41 -05:00
settings	Haplotype/Allele based optimizations for the HaplotypeCaller that knock off nearly 20% of the total runtime (multi-sample).	2013-02-21 10:14:11 -05:00
.gitignore	Fixing the licensing scripts	2013-01-26 13:42:49 -05:00
build.xml	Updating TestNG to the latest version	2013-02-22 09:40:23 -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	Brought all of ReduceReads to fastutils	2013-02-23 22:53:23 -05:00