support for spacy3 - Githubissues

kdpsingh / clinspacy

Clinical Natural Language Processing using spaCy, scispacy, and medspacy

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Open DSLituiev opened 1 year ago

DSLituiev commented 1 year ago

This pull request provides:

support for spacy3
keeps python versions in requirements.txt, not within R code, by leveraging renv package
compatibility with spacy2 is retained, though current requirements.txt points to spacy3 compatible versions only

DSLituiev commented 1 year ago

In this commit:

python packages are installed into a miniconda from a conda's native environments.yml file.
Versions are bumped for to Python3.10 and other packages are bumped up as well as older versions are poorly supported on Mac M1.
TODO: test on other platforms (Windows, Deb/Ubuntu etc)