gatk-3.8/java
hanna c5f105d050 Fix boneheaded mistake in the new interval filtering code I added on Sunday.
Sorry everyone.


git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4521 348d0f76-0448-11de-a6fe-93d51630548a
2010-10-19 01:20:12 +00:00
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config Provide a default logger, some config settings, and some doc updates. 2009-04-29 02:06:05 +00:00
src Fix boneheaded mistake in the new interval filtering code I added on Sunday. 2010-10-19 01:20:12 +00:00
test Added - a tool to fix reference bases of a VCF. The OMNI had a couple of sites with incorrect reference bases (look to be legacy from other chips), and a few more that had ref and alt flipped. GAP should probably take care of it, but since I need results by monday, I'm doing it. 2010-10-17 03:18:01 +00:00