Fix Mutect2 IndexOutOfBoundException with germline resource #7979
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davidbenjamin
approved these changes
Aug 9, 2022
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Fixes issue reported in #6605
If a germline resource vcf (such as gnomad) used when running Mutect2 includes a variant record without the AF attribute in its info field, this can lead to an IndexOutOfBoundsException. This PR fixing this, and adds a warning when this is the case.