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cokelaer / bioservices

Access to Biological Web Services from Python.
http://bioservices.readthedocs.io
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uniprot mapping service does not work #223

Closed alexbioinf closed 2 years ago

alexbioinf commented 2 years ago

a simple examples from tutorial returns either 400 error or "The combination of 'from=ID' and 'to=KEGG_ID' parameters is invalid"

from bioservices.uniprot import UniProt u = UniProt(verbose=False) print(u.search("ZAP70 and taxonomy:human", limit=3)) u.mapping(fr='ID', to='KEGG_ID', query="P31946")

cokelaer commented 2 years ago

@alexbioinf I have Poor connection at the moment so not sure whether the documentation is outdated or whether it is a bug. Be aware that uni prot API has changed recently. Make sure you have the latest pypi version of bioservices first. Then possibly it is the identifier of kegg and uni prot that have changed in their database. For kegg try to remove the training _ID

cokelaer commented 2 years ago

I have now updated the online examples