update medaka models - Githubissues

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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update medaka models #143

Closed hoelzer closed 3 years ago

hoelzer commented 3 years ago

updated the ARTIC container to also include all available models for medaka directly
thus, no internet connection is needed to pull non-default medaka models and all is in the container already

Tested on cluster machine that is behind a firewall, worked

nextflow run poreCov/poreCov.nf -profile local,singularity -params-file run.yml -w work --update --medaka_model r941_min_high_g360 --guppy_model dna_r9.4.1_450bps_sup.cfg --output results_sup_hac -resume

suggestion to do a v0.10.1 release then

replikation commented 3 years ago

yep, but as a prerelease for now. want more testing here

hoelzer commented 3 years ago

Yep sure, fine

On Fri, 6 Aug 2021, 22:36 Christian Brandt, @.***> wrote:

yep, but as a prerelease for now. want more testing here

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