-
**Describe the bug**
I tried to install `linkml` in colab, but couldn't complete. Is it not possible though?
The main issues are messages like this: `INFO: pip is looking at multiple versions of [_…
-
#15 introduced data integrity tests, but did not apply them to the merged contexts, because there seems to be some issues with the logic that generates them.
The `merged` and `merged.oak` strings s…
-
e.g.
```
"UNIPROT.ISOFORM": "http://identifiers.org/uniprot.isoform/"
"UniProtKB": "http://identifiers.org/uniprot/",
```
in the context.jsonld
these should be
"UniProtKB": "http://pur…
-
Prefixes should be consistent across each namespace _and_ consistent with expectations for downstream use - this should happen during the PHENIO build but an additional round of node QA/QC here with `…
-
need to run the cli and scripts directly in the KGX project
-
Running the similarity command with semsimian raises `curies.api.DuplicateURIPrefixes` with any parameters:
```
$ runoak -i semsimian:sqlite:obo:bfo similarity -p i,p .all @ .all
curies.api.Duplica…
-
Right now, there's a pretty substantial loss of content in the examples like
```python
from prefixmaps.io.parser import load_context, load_multi_context
from curies import Converter
ctxt = loa…
-
When we `lexmatch` through the [CLI](https://github.com/INCATools/ontology-access-kit/blob/18e5ddd6f591d0d01f0cccd2ba6c2173b86dd183/src/oaklib/cli.py#L3433), it calls the [`lexical_index_to_sssom`](ht…
-
I'm passing a SSSOM tsv file as a table to be filled for a resource (owl, obo or db file). It works fine when I remove the `metadata` and `prefix_map` from the file and just pass the `dataframe` part …
-
Does this repository have documentation on ReadTheDocs? Can you please link to it from the README?