Guillermo del Angel 820216dc68 More pool caller cleanups: ove common duplicated code between Pool and Exact AF calculation models up to super-class to avoid duplication. TMP: Have pool genotypes include the GT field. Mostly because without genotypes we can't get the site-wide AF,AC annotations, but it's unwieldy because it makes the genotype columns very long, TBD final implementation		2012-04-04 16:23:10 -04:00
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config	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
src	More pool caller cleanups: ove common duplicated code between Pool and Exact AF calculation models up to super-class to avoid duplication. TMP: Have pool genotypes include the GT field. Mostly because without genotypes we can't get the site-wide AF,AC annotations, but it's unwieldy because it makes the genotype columns very long, TBD final implementation	2012-04-04 16:23:10 -04:00
test	When constructing VariantContexts from symbolic alleles, check for the END tag in the INFO field; if present, set the stop position of the VC accordingly. Added integration test to ensure that this is working properly for use with -L intervals.	2012-04-04 10:57:05 -04:00