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VariantCallingAnnotations is getting populated with INFO fields #1063

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fnothaft opened this issue Jul 1, 2016 · 1 comment
Closed

VariantCallingAnnotations is getting populated with INFO fields #1063

fnothaft opened this issue Jul 1, 2016 · 1 comment
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@fnothaft
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@fnothaft fnothaft commented Jul 1, 2016

See https://github.com/bigdatagenomics/adam/blob/master/adam-core/src/main/scala/org/bdgenomics/adam/converters/VariantAnnotationConverter.scala#L112. Variant calling annotations should be populated from the per-sample GT "FORMAT" fields, not INFO fields.

@fnothaft fnothaft added the bug label Jul 1, 2016
@heuermh heuermh mentioned this issue Jul 18, 2016
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@heuermh heuermh modified the milestone: 0.20.0 Jul 18, 2016
@heuermh heuermh modified the milestones: 0.20.0, 0.22.0, 0.21.0 Oct 13, 2016
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@heuermh heuermh commented Jan 5, 2017

Fixed by #1288

@heuermh heuermh closed this Jan 5, 2017
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