Add virAnnot tool #5482
Add virAnnot tool #5482
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| #!/usr/bin/env python3 | |||
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Can you skip this tool and use https://usegalaxy.eu/root?tool_id=toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/blastxml_to_tabular/2.10.1+galaxy2 instead?
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Hi @bgruening,
Thanks for your suggestion. I had look at this tool before implementing the virannot one.
Even if there is the annotation, it is missing the taxonomic info like Viruses;Riboviria;Orthornavirae;Kitrinoviricota;Alsuviricetes;Martellivirales;Bromoviridae;Ilarvirus;Blackberry chlorotic ringspot virus.
In the near future I plan to only use the annotation for virAnnot, but that will be for the next version.
| </param> | ||
| </inputs> | ||
| <outputs> | ||
| <data format="xlsx" name="otu_table" label="${tool.name} on ${on_string}: otu_stats" from_work_dir="otu_output/otu_stats.xlsx" /> |
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xls and zip are not very good formats for further post-processing. Is there a useful output that the user should use for any further steps?
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The OTU module is the last step in the virannot suite. I don't see any other analyses, even in other pipelines.
| </param> | ||
| </inputs> | ||
| <outputs> | ||
| <data name="output" format="tabular" from_work_dir="rps_result.tab" /> |
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if you like you can add column headers as metadata.
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Do you have an example ? I am not sure how to do it.
Co-authored-by: Björn Grüning <[email protected]>
Co-authored-by: Björn Grüning <[email protected]>
Co-authored-by: Björn Grüning <[email protected]>
Co-authored-by: Björn Grüning <[email protected]>
Co-authored-by: Björn Grüning <[email protected]>
Co-authored-by: Björn Grüning <[email protected]>
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@marieBvr can we help here somehow? |
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Thanks @marieBvr! Great work, thanks for your patience with us. |
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Attention: deployment failure! https://github.com/galaxyproject/tools-iuc/actions/runs/8144741884 |
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Fixed the upload. Its now in the ToolShed. |
FOR CONTRIBUTOR: