gatk3的最后一个经典版本3.8

Mark DePristo fb86887bf2 Fast algorithm for determining which kmers are good in a read ... -- old algorithm was O(kmerSize * readLen) for each read. New algorithm is O(readLen) -- Added real unit tests for the addKmersFromReads to the graph. Using a builder is great because we can create a MockBuilder that captures all of the calls, and then verify that all of the added kmers are the ones we'd expect.		2013-04-11 09:54:22 -04:00
licensing	Removing the symlink from the private license file	2013-02-09 12:57:44 -05:00
protected	Fast algorithm for determining which kmers are good in a read	2013-04-11 09:54:22 -04:00
public	Bug fix in SWPairwiseAlignment.	2013-04-10 16:04:37 -04:00
settings	Don't allow users to specify keys and IDs that contain angle brackets or equals signs (not allowed in VCF spec).	2013-04-05 00:52:32 -04:00
.gitignore	Fixing the licensing scripts	2013-01-26 13:42:49 -05:00
build.xml	Disable Contracts for Java for tests	2013-04-04 11:56:17 -04:00
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