Eric Banks 70479cb71d RR bug fix: we were failing when a read started with an insertion just at the edge of the consensus region. ... The weird part is that the comments claimed it was doing what it was supposed to, but it didn't actually do it. Now we maintain the last header element of the consensus (but without bases and quals) if it adjoins an element with an insertion. Added the user's test file as an integration test.		2012-12-19 10:59:07 -05:00
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bqsr	Updating tests to handle bad validation data files (that used the wrong qual score encoding); overrides push from stable.	2012-12-03 22:01:07 -05:00
compression/reducereads	RR bug fix: we were failing when a read started with an insertion just at the edge of the consensus region.	2012-12-19 10:59:07 -05:00
genotyper	Move VCF/BCF2/VariantContext to new standalone org.broadinstitute.variant package	2012-12-19 10:25:22 -05:00
haplotypecaller	Move VCF/BCF2/VariantContext to new standalone org.broadinstitute.variant package	2012-12-19 10:25:22 -05:00