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The `graph-notebook` package currently has a strict dependence on `rdflib` version 5.0.0, while that package is already at v6.2.0 at the time of writing.
https://github.com/aws/graph-notebook/blob…
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A first draft of the specific steps for making changes to MIxS after release 6.2 is in the following comment.
This workflow It will be a markdown page in the MIxS repo that will link from the main…
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I checked out the tip of the `main` branch of the `berkeley-schema-fy24` fork ([this commit](https://github.com/microbiomedata/berkeley-schema-fy24/commit/37388fef9573ae46d86fb5b7962e55b2e0eb80bd)) an…
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## The Problem: (illustrated using the caf profile)
At present the caf profile does not directly use core-im `DataSet` or `StudyGroup` classes to capture data in the `derivedFrom` and `cohort` proper…
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cc @aclum
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This problem arose when @justaddcoffee , @caufieldjh and I were hacking together on `oakx-grape`.
On using `oaklib` latest version, the command `runoak -I sqlite:obo:pato terms` returns `IndexError…
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**Describe the bug**
All the docker builds aren't working :(
https://github.com/linkml/linkml/actions/workflows/docker-build.yaml
Comparing the last working one: https://github.com/linkml/linkml/…
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While checking on an older issue, I found that we're getting "gene" nodes from phenio:
category | in_taxon | id | provided_by |
|--------------|----------|------------------|----…
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LinkML schemas *should* be monotonic.
Subclassing and slot usage are intended to *refine* rather than *override*. Formally,[non-monotonic inference](https://en.wikipedia.org/wiki/Non-monotonic_log…
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##### Project link
https://github.com/orgs/geneontology/projects/88
##### Project description
The purpose of this project is to refactor the GO_REFs file so that it is generated from a schema-c…