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Unable to download non-reference genome. #95

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raymondconor21 opened this issue Mar 12, 2024 · 0 comments
Open

Unable to download non-reference genome. #95

raymondconor21 opened this issue Mar 12, 2024 · 0 comments

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@raymondconor21
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Using getGenome() I am unable to download genomes that are not reference genomes, which is a problem because I am working with mostly uncharacterized or less characterized bacteria. This problem is the same no matter what arguments I change, what database I pull from, or how I list the organism

genome <- getGenome(db - "ensembl", organism = taxon_id)

Unfortunately no GENOME file could be found for organism '1506'. Thus, the download of this organism has been omitted. Have you tried to specify 'reference = FALSE' ?

This is the same error I find in the guide, and the exact same problem is referenced, but it does not provide a solution and it appears there may be an issue with the package itself when retrieving the genomes because the solution it provides shows the exact same message (attached)

Screenshot 2024-03-12 175819

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