Was looking to change the pangolin analysis type while running ncov-tools and I didn't see any configuration options for it so I've attempted to add it in with my limited snakemake knowledge.
Pangolin 4 lets the user specify an analysis mode from "fast" or "accurate" with the --analysis-mode argument. This change is adding that in with the default set to "accurate" as is the same with the tool itself.
I am not sure how this affects the pangolin_version: "3" option so it might need a few changes to accommodate the backwards compatibility aspect there
Was looking to change the pangolin analysis type while running ncov-tools and I didn't see any configuration options for it so I've attempted to add it in with my limited snakemake knowledge.
Pangolin 4 lets the user specify an analysis mode from "fast" or "accurate" with the
--analysis-mode
argument. This change is adding that in with the default set to "accurate" as is the same with the tool itself.I am not sure how this affects the
pangolin_version: "3"
option so it might need a few changes to accommodate the backwards compatibility aspect thereCheers