chartl 3e7802a3e0 Minor changes to a qscript and the GQ constants on PrivatePermutations ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4956 348d0f76-0448-11de-a6fe-93d51630548a		2011-01-07 18:26:21 +00:00
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qscript	Minor changes to a qscript and the GQ constants on PrivatePermutations	2011-01-07 18:26:21 +00:00
src	PrivatePermutations generalized to compute transition counts and average probabilities (and thus was renamed). Changes in some pipelines to reflect the change. Bugfix in the batch merging pipeline (it would halt because the allele VCF for genotyping batches could become off-spec).	2010-12-22 15:16:15 +00:00
test/org/broadinstitute/sting/queue	Updated pipeline test to match Eric's changes in r4846.	2010-12-17 19:52:09 +00:00