gatk3的最后一个经典版本3.8

Mauricio Carneiro ec8617bc9b Removing mark duplicates from the quick processing pipeline ... this pipeline is processing pcr free data, and for now, MarkDuplicates has not been necessary.		2013-03-10 17:24:22 -04:00
licensing	Removing the symlink from the private license file	2013-02-09 12:57:44 -05:00
protected	- Changed loadContaminationFile file parser to delimit by tab only. This allows spaces in sampleIDs, which apparently are allowed.	2013-03-07 13:04:24 -05:00
public	- Changed loadContaminationFile file parser to delimit by tab only. This allows spaces in sampleIDs, which apparently are allowed.	2013-03-07 13:04:24 -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	Fix tests that were consistently or intermittently failing when run in parallel on the farm	2013-03-06 13:56:54 -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