Mark DePristo f6ccac889b Merged bug fix from Stable into Unstable		2011-10-23 16:37:12 -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	Merged bug fix from Stable into Unstable	2011-10-23 16:37:12 -04:00
test	CombineVariants bug fix: when merging records with disparate alleles we were leaving AC,AF fields intact. This had as a consequence that we could end up with a record with 3 alt alleles but only 2 values in AC,AF fields. Now, if alleles in combined vc are different from original, and if AC,AF fields can't be recomputed from genotypes, we remove attributes from vc map since they'll be invalid anyway. Integration test md5 changed since there were several badly merged records in result	2011-10-21 14:07:20 -04:00