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EmilyAlsentzer / clinicalBERT

repository for Publicly Available Clinical BERT Embeddings
MIT License
673 stars 135 forks source link

Instaling dependnices #35

Closed TahaAslani closed 3 years ago

TahaAslani commented 3 years ago

I am trying to installing the dependencies by running conda create --name <env> --file requirements.txt However, since I don't have many of the required channels, my conda cannot install all of them. Moreover, my conda also cannot file the pip packages (pypi_0) from my current channels, even though I have pip. Can you please provide the .yml file of your environment, which contains the full description of the environment, including the conda channels? Thanks!

TahaAslani commented 3 years ago

Could you please also mention how did you install spacy and scispacy? And how en_core_sci_md was downloaded? This is how I installed them: pip install spacy==2.0.18 pip install scispacy==0.1.0 pip install https://s3-us-west-2.amazonaws.com/ai2-s2-scispacy/releases/v0.4.0/en_core_sci_md-0.4.0.tar.gz

EmilyAlsentzer commented 3 years ago

Apologies for the huge delay! Yes, that should work.

TahaAslani commented 3 years ago

Thanks!