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replikation / poreCov

SARS-CoV-2 workflow for nanopore sequence data
https://case-group.github.io/
GNU General Public License v3.0
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Nextclade update #150

Closed ebarretoh closed 2 years ago

ebarretoh commented 3 years ago

Hi Excelente work. Is it a possibility to update the Nextclade version?

replikation commented 3 years ago

hi, yes of course. we add it to the next release.

ebarretoh commented 3 years ago

Thanks Christian. May be, add an option like '--update' for pangolin

DataSpott commented 2 years ago

Greetings @ebarretoh The new nextclade-version 1.3.0 is now incorporated and can be accessed by using the branch-name "nextclade_docker_update" as argument for the [-r]-flag while running the command (e.g.: "nextflow run replikation/poreCov -r nextclade_docker_update ..."). Also while its working, I encountered some differences in the results compared to the former nextclade-version in the actual release. This will require further testing for now.

replikation commented 2 years ago

@ebarretoh yes makes sense to include nextclade into the --update flag to provide an always up-to-date version.