gatk3的最后一个经典版本3.8

hanna 7fda409f4e Fixed bug where read traversals would fail with an exception when not called with a genome_region (-L) argument. From TraversalEngine, line 455, looks like Mark intended an invariant where the list of locations is 0 length if not specified. Made GenomeLoc code compliant with that. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@230 348d0f76-0448-11de-a6fe-93d51630548a		2009-03-30 23:43:12 +00:00
c	Move non-java code out of playground.	2009-03-23 19:31:38 +00:00
doc	Check in the omniplan file for easier sharing.	2009-03-30 21:31:54 +00:00
java	Fixed bug where read traversals would fail with an exception when not called with a genome_region (-L) argument. From TraversalEngine, line 455, looks like Mark intended an invariant where the list of locations is 0 length if not specified. Made GenomeLoc code compliant with that.	2009-03-30 23:43:12 +00:00
python	Added Hapmap data track (using rodGFF class for GFF file format) to toolkit as a command line option, Hapmap metrics to AlleleFrequencyMetricsWalker, and a python Geli2GFF file converter.	2009-03-24 03:58:03 +00:00
settings	Bump picard and samtools to latest.	2009-03-27 02:26:28 +00:00
shell	Move non-java code out of playground.	2009-03-23 19:31:38 +00:00
testdata	Skeleton of new directory structure.	2009-03-11 20:05:05 +00:00
build.xml	Bug fix: build couldn't be forced to core. Now it can be.	2009-03-29 01:36:25 +00:00
ivy.xml	Bump picard and samtools to latest.	2009-03-27 02:26:28 +00:00