gatk3的最后一个经典版本3.8

Mark DePristo 68eed7b313 Optimizations for VCF and BCF2 ... -- encodeTyped in BCF2Encoder now with specialized versions for int, float, and string, avoiding unnecessary intermediate list creation and dynamic type checking. encodeTypedMissing also includes inline operations now instead of using Collections.emptyList() version. Lots of contracts. User code updated to use specialized versions where possible -- Misc code refactoring -- Updated VCF float formating to always include 3 sig digits for values < 1, and 2 for > 1. Updating MD5s accordingly -- Expanded testing of BCF2Decoder to really use all of the encodeTyped* operations		2012-06-14 16:42:39 -04:00
licensing	Remove old licensing	2012-04-25 12:23:08 -04:00
protected/java/src/org/broadinstitute/sting	build system overhaul	2012-05-17 15:16:29 -04:00
public	Optimizations for VCF and BCF2	2012-06-14 16:42:39 -04:00
settings	Testing of BCF codec	2012-05-24 10:57:01 -04:00
.gitignore	Minor additions to the shared .gitignore file, now that Mark has checked one in.	2011-10-26 12:24:28 -04:00
build.xml	ant fasttest: for when you just can't wait	2012-06-01 15:17:18 -04:00
ivy.xml	Final updates to integration tests for BCF2	2012-05-24 10:58:59 -04:00