NEB SARS-CoV-2 primers

[tavareshugo]

The NEB primer BED files on the config file don't seem to exist: here and here.

It might also be worth documenting what vss1 and vsl1 corresponded to in terms of VarSkip primer versions available from NEB (maybe just a comment in the config would be enough).

[maxulysse]

@tavareshugo there is no NEB folder in https://github.com/nf-core/test-datasets/tree/viralrecon/genome/MN908947.3/primer_schemes only artic, I'm pretty sure that's were the issue lies.

Any idea about that @drpatelh ?

[drpatelh]

Oof! The PR adding those files is still open 🤦🏽
nf-core/test-datasets#299

Don't think anyone checked before merging into nf-core/configs:
nf-core/configs#264 (review)

Still need to address my comments on nf-core/test-datasets and then merge for them to become available.

[drpatelh]

I have pushed some changes and merged nf-core/test-datasets#299

Fixed the URLs and added a comment in the config regarding the different options for NEB: nf-core/configs@9d05c1b

Should be fixed now. Thanks for reporting @tavareshugo !