gatk3的最后一个经典版本3.8

kiran dffc879240 Should now be appropriately using Bustard data to call bases (there are some mathematical subtleties that arise when no longer using ICs as initialization data. Also writes some more relevant fields in the SAM records. WAAAAAY simpler than old version. Like, super way. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@275 348d0f76-0448-11de-a6fe-93d51630548a		2009-04-02 22:10:13 +00:00
c	Move non-java code out of playground.	2009-03-23 19:31:38 +00:00
doc	Slight improvements to allele caller interface; fixed problem with printing progress	2009-04-02 16:44:12 +00:00
java	Should now be appropriately using Bustard data to call bases (there are some mathematical subtleties that arise when no longer using ICs as initialization data. Also writes some more relevant fields in the SAM records. WAAAAAY simpler than old version. Like, super way.	2009-04-02 22:10:13 +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