NCBI datasets: Update macros.xml regarding taxon selection #5803
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Suggest adding this text to the wrapper to clarify how to select a taxon. (If this is correct?)
bernt-matthias
changed the title
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| </xml> | |||
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| <xml name="taxon_positional"> | |||
| <param name="taxon_positional" type="text" label="Enter taxon" help="e.g. human, mouse, bos taurus, etc."/> | |||
| <param name="taxon_positional" type="text" label="Enter taxon" help="e.g. human, mouse, bos taurus, etc. or use Taxonomy ID from NCBI for greater accuracy, use species-level only not genera or larger taxa"/> | |||
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What do you mean by accuracy? Probably depends on the question.
I for instance used this tool only to download all the data for larger taxonomic groups. In this context the last part seems to make not so much sense.
The statement about taxids definitely makes sense.
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ah right, thanks @bernt-matthias - I thought it was not extracting data beyond the species level. I'm doing another test to see. Perhaps it's a different error, if I narrow it down I will post it as an issue for this tool.
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I'm not sure what the error means: https://github.com/galaxyproject/tools-iuc/actions/runs/8107796267 Should I update the tool to the latest version? I fear that many more tests will fail ;) |
Hi @bgruening sorry I can't see the error in that link, but I am getting an error that says ```New version of client (16.6.0) available at https://ftp.ncbi.nlm.nih.gov/pub/datasets/command-line/LATEST/linux-amd64/datasets |
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@AnnaSyme can you look at the bottom of https://github.com/galaxyproject/tools-iuc/actions/runs/8114718425?pr=5803 |
Sorry @bgruening I read it but I don't understand why it's failing |
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Will have a look. |
Suggest adding this text to the wrapper to clarify how to select a taxon. (If this is correct?)
FOR CONTRIBUTOR: