gatk-3.8/java
rpoplin 7bb9704592 Update the BeagleOutputToVCF integration test because of removing the source header line. Source headers are provided by the engine for all VCF files now.
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4453 348d0f76-0448-11de-a6fe-93d51630548a
2010-10-07 19:55:57 +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 Removed the qScale arguments in VariantRecalibrator. It is smarter about how it tries to find a cut so the arbitrary scale factor hopefully is no longer necessary. Now the recalibrated variant quality score more accurately reflects our believed lod of the call. 2010-10-07 18:04:57 +00:00
test Update the BeagleOutputToVCF integration test because of removing the source header line. Source headers are provided by the engine for all VCF files now. 2010-10-07 19:55:57 +00:00