gatk3的最后一个经典版本3.8

Eric Banks e4ec899a87 First pass at adding unit tests for the RR framework: I have added 3 tests and all 3 uncovered RR bugs! ... One of the fixes was critical: SlidingWindow was not converting between global and relative positions correctly. Besides not being correct, it was resulting in a massive slow down of the RR traversal. That fix definitely breaks at least one of the integration tests, but it's not worth changing md5s now because I'll be changing things all over RR for the next few days, so I am going to let that test fail indefinitely until I can confirm general correctness of the tool.		2013-01-29 15:51:07 -05:00
licensing	Refrain from pushing symlinks into the repo... not all filesystems treat it correctly	2013-01-22 15:18:19 -07:00
protected/java	First pass at adding unit tests for the RR framework: I have added 3 tests and all 3 uncovered RR bugs!	2013-01-29 15:51:07 -05:00
public	Merge branch 'master' of github.com:broadinstitute/gsa-unstable	2013-01-28 22:33:13 -05:00
settings	Final r119 tribble jar	2012-11-02 14:30:33 -04:00
.gitignore	Fixing the licensing scripts	2013-01-26 13:42:49 -05:00
build.xml	Remove the ability to package GATK/Queue Lite from the build system	2013-01-28 02:42:37 -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