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VCF Parsing Issue #381

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17tranap opened this issue Jun 24, 2020 · 1 comment

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bug

17tranap commented Jun 24, 2020

I'm running some BCFTools operations on the VCF outputs of the Kevlar pipeline (from simlike).

It's a small issue, but the VCF syntax stumbles on the INFO lines:

##INFO=<ID=IKMERS,Number=1,Type=Integer,Description="number of "interesting" (novel) k-mers spanning the variant alternate allele">

This is because there are quotes around "interesting", and it makes it so that this line cannot be parsed.

It is also missing the INFO fields for CALLCLASS and PART.

Collaborator

standage commented Jun 25, 2020

Thanks for the report @17tranap! I'm not actively working on kevlar at the moment, so it may take me some time to get around to fixing this.

standage added the bug label

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