Daniel King

Did you have any luck adapting the noun chunker?

Hi, we don't have support for the OMIM ontology at this point. It should be possible to add your entity linker if you have access to the ontology though. See...

@DeNeutoy could you point to how to add a new entity linker?

I think the idea was to not use the spacy model cache in conftest at all, but instead have each group of related tests load a model like this: https://github.com/allenai/scispacy/blob/688ac1644178f592c946ba3a9a3ac9e7059b7c48/tests/test_abbreviation_detection.py#L15

Interesting, not sure off the top of my head. Leaving this open for now, let me know if you happen to resolve anything. At a minimum, you could do the...

The entity extractor in the core scispacy models is trained on the medmentions dataset (https://github.com/chanzuckerberg/MedMentions). This is a _very_ different dataset from the one that the core spacy models are...

These are the "more specific NER models" I was referring to. They are each trained on a different biomedical corpus, and have different entity types. As I said, the core...

we're using spacy 3's new config system and [spacy projects](https://spacy.io/usage/projects). So our project file lives [here](https://github.com/allenai/scispacy/blob/master/project.yml) and our configs live [here](https://github.com/allenai/scispacy/tree/master/configs). You should be able to follow these as a...

@chrislit Any chance you could help us out here? We are trying to use abydos without a gpl license.

From a brief google, this looks like it might be encryption + linux mint related? https://forums.linuxmint.com/viewtopic.php?t=173328 That being said, if you aren't able to resolve the long file names, please...