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Fix insertion with n consequence type #3

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merged 2 commits into from
Oct 2, 2023

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awab-ahmed
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4.12.5 introduced a bug where insertion variants > 50bp with N in the reference are classified as MNVs and therefore their consequeneTypes are miscalculated.

E.g of variant: 11:68410141:N:TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGN

In this PR the conditions in VariantAnnotationUtils.getVariantType are changed so that such variants are classified as insertions so that the correct ConsequenceTypeCalculator gets assigned.

Approved here: opencb#672

@awab-ahmed awab-ahmed merged commit 9bc4e8c into release-4.12.x Oct 2, 2023
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