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-doBcf output corrupted? #600

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RyanEckert opened this issue Oct 23, 2023 · 1 comment
Open

-doBcf output corrupted? #600

RyanEckert opened this issue Oct 23, 2023 · 1 comment

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@RyanEckert
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Using v 0.938 and 0.940 I am having issues with .bcf output

The file is not human readable (it should be though?).
The file is not gzipped, as .vcf files were in previous versions. However if I gunzip (or zcat) the header info and samples become readable, but all the variant information is still not human readable.

I have used .bcf output on earlier versions, so I'm not sure if something is corrupted in these releases or on my HPC.

@TonyKess
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TonyKess commented Dec 7, 2023

bcf's shouldn't be human readable, it's binary variant call format. You can just do bcftools view > and you should get a human readable vcf out

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