bugfix: bcftools overlapping variants issue

artic-network / fieldbioinformatics

The ARTIC field bioinformatics pipeline

MIT License

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Open rzlim08 opened 2 years ago

rzlim08 commented 2 years ago

this is just a cherry-pick from the 1.3.0 PR
I believe this should fix the overlapping variants issue as detailed here which has been a persistent issue for us
The occurrence at which runs fail at the bcftools consensus step has been increasing over time