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Update: pangolin modules#12211

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ammaraziz merged 9 commits into
nf-core:masterfrom
ammaraziz:pangolin-update
Jul 20, 2026
Merged

Update: pangolin modules#12211
ammaraziz merged 9 commits into
nf-core:masterfrom
ammaraziz:pangolin-update

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@ammaraziz

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Hi guys,

Retrying this pull request, last one had a silly issue on my end.

  1. Migrated to using topics channels for both modules

  2. Modified the test files as they were testing for version.yml

  3. Update dependencies:

    • pangolin version updated to 4.4
    • pangolin-data version updated to 1.39
    • snakemake-minimal version updated to 9.21.1 - I chose a version that looked stable, fixed bugs but didnt introduce too many new features just to be sure.

Thanks!

@LouisLeNezet LouisLeNezet left a comment

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Just some simplification on the version expression, but good to go otherwise.

Comment thread modules/nf-core/pangolin/run/tests/main.nf.test Outdated
Comment thread modules/nf-core/pangolin/run/main.nf Outdated
Comment thread modules/nf-core/pangolin/run/meta.yml Outdated
Comment thread modules/nf-core/pangolin/updatedata/tests/main.nf.test Outdated
Comment thread modules/nf-core/pangolin/updatedata/main.nf
@atrigila atrigila added the awaiting-changes will be closed after 30 days label Jul 2, 2026
@SPPearce

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@ammaraziz , do you want to get this finished off?

@ammaraziz
ammaraziz enabled auto-merge July 20, 2026 06:15
@ammaraziz
ammaraziz added this pull request to the merge queue Jul 20, 2026
Merged via the queue into nf-core:master with commit d2ff09b Jul 20, 2026
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@ammaraziz
ammaraziz deleted the pangolin-update branch July 20, 2026 09:46
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4 participants