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chore: update dependencies#1070

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aliciaaevans merged 2 commits intomasterfrom
update_deps
Jan 8, 2026
Merged

chore: update dependencies#1070
aliciaaevans merged 2 commits intomasterfrom
update_deps

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@bgruening
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@bgruening
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@aliciaaevans is that ok to merge?

@bgruening bgruening changed the title update dependencies chore: update dependencies Jan 7, 2026
@aliciaaevans
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I think the 4.5 is ok, per bioconda/bioconda-recipes#59418 the conda-forge migration is done.

Updating to the latest conda-forge pinning gives Python 3.10-3.13. Are we ready to drop 3.9 and add 3.13? It's going to end up triggering a bunch of builds. For 3.12 we first updated it on bulk. https://bioconda.github.io/developer/bulk.html#updating-pinnings People are asking for 3.13 so it does need to be done, but alternatively I guess the python versions could be overridden to buy some time.

@bgruening
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I think so 3.9 is EOL and 3.13 is ready since some time in conda-forge. We need to move on imho. And there is this PR bioconda/bioconda-recipes#61459 where it would also be beneficial.

@aliciaaevans
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Sounds good. Do you want to take the lead on bulk? I can help move things along and resolve issues, just not sure how much time I can commit to.

@bgruening
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I can try. There is a bioconductor bulk branch coming. Feel free to merge if you like.

@aliciaaevans aliciaaevans merged commit af5b330 into master Jan 8, 2026
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@aliciaaevans aliciaaevans deleted the update_deps branch January 8, 2026 16:53
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2 participants