gatk3的最后一个经典版本3.8

Mark DePristo 2aac9e2782 More efficient ZipLinearChains algorithm ... -- Goes through the graph looking for chains to zip, accumulates the vertices of the chains, and then finally go through and updates the graph in one big go. Vastly more efficient than the previous version, but unfortunately doesn't actually work now -- Also incorporate edge weight propagation into SeqGraph zipLinearChains. The edge weights for all incoming and outgoing edges are now their previous value, plus the sum of the internal chain edges / n such edges		2013-04-08 12:47:48 -04:00
licensing	Removing the symlink from the private license file	2013-02-09 12:57:44 -05:00
protected	More efficient ZipLinearChains algorithm	2013-04-08 12:47:48 -04:00
public	Remove the capability of EventMap to emit symbolic alleles for unassembled events	2013-04-08 12:47:48 -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