NAL-i5K / tripal_eutils

ncbi loader via the eutils interface
GNU General Public License v3.0
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can we automate pulling the biosample property xml and version it /detect changes? #32

Closed bradfordcondon closed 5 years ago

bradfordcondon commented 5 years ago

https://www.ncbi.nlm.nih.gov/biosample/docs/attributes/?format=xml

bradfordcondon commented 5 years ago

class added in #36

As of today, 456 terms. We have machine name, labels, and definitions --- we also have info about what packages use those terms (IE if they are part of the Minimal information set, the human package, etc). So we could very easily and happy define a NCBI_Biosample ontology and use those...

What do we want to do? Host the XML files within this repo and version them ourselves, using this script to determine if terms drop etc( . we dont check that the term definition changes but i think thats not necessary).

bradfordcondon commented 5 years ago

note: there isnt an equivalent documentation for Assembly (https://www.ncbi.nlm.nih.gov/assembly/docs/submission/ closest i can find) or BioProject (https://www.ncbi.nlm.nih.gov/bioproject) .

bradfordcondon commented 5 years ago

here's what we'll do: