Comments (3)
thermokarst
commented on September 16, 2024
1
Hey @mikerobeson - I don't think deblur specifically pinned vsearch, but rather just didn't work with newer version of vsearch. A new release of deblur just landed, we're working on pulling it into the core distro, once that's set I hope we'll be able to unpin vsearch.
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mikerobeson
commented on September 16, 2024
Just a short little update... I installed the latest version of vsearch (2.21.1) into my QIIME 2 test environment. I was able to run core-diversity-metrics and deblur denoise-16S w/o issue. Thus, on the surface, it appears that UniFrac and deblur may no longer be the pinning culprits? I can try running the other deblur actions, etc... Are there are plugins / actions I should look into? Let me know.
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mikerobeson
commented on September 16, 2024
Thanks for the update @thermokarst!
If anyone is interested I am working on the relevant code for this here. I still need to work on testing and test code etc... When I get further along I'll submit as a PR Draft.
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Related Issues (20)
- Add support for gtdb release 214 HOT 1
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- orient-seqs: accept FASTQ data as input HOT 2
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- Remove heavy dependencies HOT 5
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- ENH: Add option to download the corrected `214.1` GTDB database. HOT 2
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- ENH: `trim-alignment`, add `--p-addfragments` flag when using primer search option. HOT 1
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- full SILVA LSU download HOT 3
- ENH: Add the ability to fetch the latest GTDB database (v220) to `get-gtdb-data` HOT 1
- get-ncbi-data Command Error HOT 1
- get-ncbi-genomes: custom rank information
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