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
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)
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)