As pointed out in https://help.galaxyproject.org/t/chewbbaca-downloadschema-schema-files-organisms-are-mixed-up/17638 the species IDs assumed in
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<param argument="--species-id" type="select" label="Species ID"> |
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<option value="1">Streptococcus pyogenes</option> |
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<option value="2">Acinetobacter baumannii</option> |
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<option value="3">Arcobacter butzleri</option> |
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<option value="4">Campylobacter jejuni</option> |
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<option value="5">Escherichia coli</option> |
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<option value="6">Listeria monocytogenes</option> |
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<option value="7">Yersinia enterocolitica</option> |
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<option value="8">Salmonella enterica</option> |
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<option value="9">Streptococcus agalactiae</option> |
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<option value="10">Brucella melitensis</option> |
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<option value="11">Brucella</option> |
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<option value="12">Clostridium perfringens</option> |
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<option value="13">Clostridium chauvoei</option> |
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<option value="14">Bacillus anthracis</option> |
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<option value="15">Klebsiella oxytoca</option> |
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<option value="16">Clostridium neonatale</option> |
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</param> |
are almost entirely different from the ones listed at https://chewbbaca.online/stats, which means users are not getting data for the species they think they are getting when using the wrapper.
Not sure how this difference arose. Are those species IDs not static upstream?
@nilchia
As pointed out in https://help.galaxyproject.org/t/chewbbaca-downloadschema-schema-files-organisms-are-mixed-up/17638 the species IDs assumed in
tools-iuc/tools/chewbbaca/DownloadSchema.xml
Lines 17 to 34 in 0aeeab3
are almost entirely different from the ones listed at https://chewbbaca.online/stats, which means users are not getting data for the species they think they are getting when using the wrapper.
Not sure how this difference arose. Are those species IDs not static upstream?
@nilchia