cui2icd10 question + some setup feedback about medcat HOT 6 CLOSED

oh also when using the get_entities() function, cui2snomed causes a KeyError; not that the other keys return anything right now, but cui2snomed isn't found here

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Hi @rahul-evenup-ai, thank you for a detailed report. The issue with get_entites is resolved in the latest version. I've just created a new python env and run pip install --upgrade medcat downloaded the models and all went through without a problem. Do you mind testing that out and reporting the problems you encounter - I'll try to address them asap.

Re en_core_sci_lg you are right, the medmen cdb uses that model, I'll change it to en_core_sci_md, thanks.

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For the cui2icd10 once you have a UMLS licence I'll share the big models that contain those fields also. We are not allowed to make that public, because of UMLS rules.

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yeah so the issue was actually the pip version, you need pip 21.1.1 or higher. Apart from the spacy_model loading, everything else worked! And got it, thanks for the quick reply! Also it works with python 3.8.10 as well.

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Interesting (re pip), I'll make the clear in the README and close the issue - if that is fine with you.

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yup sure, thanks for the info

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