Erica Wood

Has this been solved? I am similarly getting an error like this: ``` Parsing input files... OpenJDK 64-Bit Server VM warning: Archived non-system classes are disabled because the java.system.class.loader property...

Thank you for your quick response! I did try using a previous version of foodon, but that didn't work. It still doesn't work (same error).

This is the single `biolink:Exon` node in KG2 (checked in RTX-KG2.9.0pre): ``` { "iri": "http://www.ebi.ac.uk/efo/EFO_0004423", "synonym": [ "exonic region" ], "category_label": "exon", "deprecated": "False", "name": "exon", "description": "An exon is...

Here is the term in `efo.owl`: ``` An exon is a nucleic acid sequence that is represented in the mature form of an RNA molecule either after portions of a...

`EFO:0004423` is a subclass of `material entity` (`BFO:0000040`), along with several other similar terms. It looks like the same issue also shows up with a different subclass of `material entity`...

With ab8a4e2, I committed a patch so it will build. HOWEVER, with this patch, you cannot run the code in `--savePickle` mode.

> Can we mark this "verify in next build"? @saramsey Sort of... it hasn't been fixed in the upstream ontology, so this is just a temporary workaround.

We need to add this to `kg2-versions.md` for documentation purposes.

@saramsey Do we need this in an `attributes` list? Currently, we don't use an `attributes` list in RTX-KG2pre. That data type won't serialize nicely into Neo4j (since it just becomes...

@saramsey Are we currently expected to fulfill the short term or long term specification on https://github.com/NCATSTranslator/ReasonerAPI/blob/master/ImplementationGuidance/Specifications/knowledge_level_agent_type_specification.md?