Guillermo del Angel 5971006678 Bug fix when running nondiploid mode in UG with EMIT_ALL_SITES: if site was reference-only, QUAL is produced OK but genotypes were being set to no-call because of unnecessary likelihood normalization. May change integration test md5 which I'll fix later today		2012-10-12 12:45:55 -04:00
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src/org/broadinstitute/sting	Bug fix when running nondiploid mode in UG with EMIT_ALL_SITES: if site was reference-only, QUAL is produced OK but genotypes were being set to no-call because of unnecessary likelihood normalization. May change integration test md5 which I'll fix later today	2012-10-12 12:45:55 -04:00
test/org/broadinstitute/sting/gatk/walkers	Turning on allele trimming for the haplotype caller.	2012-10-10 10:47:26 -04:00