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[Error:](https://build.berkeleybop.io/job/knowledge-graph-hub/job/kg-microbe/job/master/260/console)
```bash
10:16:18 File "/var/lib/jenkins/workspace/edge-graph-hub_kg-microbe_master/gitrepo/ven…
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Fill in this stub dir: https://github.com/INCATools/ontology-access-kit/tree/main/src/oaklib/implementations/umls
We may want to have this implementation wrap two different aspects of UMLS
- lo…
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Currently the cross-ontology-diff code uses an ad-hoc tuple as the output:
https://github.com/INCATools/ontology-access-kit/blob/52771fef55cce0749863c3ea45a55bd7110f785e/src/oaklib/omk/omk_mapping_…
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@cmungall @justaddcoffee @caufieldjh any idea what these are?
ERROR:root:Skipping statements(subject=MONDO:0016830,predicate=skos:exactMatch,object=,value=None,datatype=None,language=None,); ValueE…
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This is similar to #147
We have started such a process in AgroPortal : https://github.com/agroportal/project-management/issues/265
CC @graybeal
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We have some default colors for some ontologies in our kgviz stylesheet:
https://github.com/INCATools/ontology-access-kit/blob/e2c76d68a7e72ad847fb3ca7045b23050c4c11a3/src/oaklib/conf/obograph-styl…
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I conducted a semantic similarity calculation experiment where I noticed that the Jaccard Similarity Score values of certain records differed when I used the `--information-content-file` option. I am …
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Having pieces of code like https://github.com/INCATools/ontology-access-kit/blob/d139e99fe7faa109e0b71840e20140852a8267d9/src/oaklib/utilities/lexical/lexical_indexer.py#L52, and I think just searchin…
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We want the functionality, tied to LinkML specifications for a field to allow selected terms from one or more ontology branches or cherry-picked terms from them. Beyond this, we also need the dynamic…
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Currently we use a mixture of rdflib and sparqlwrapper in all sparql implementations (recall we also use sparql for local rdf files as well).
These provide extremely low-level interfaces and assume…