Anita Caron comments

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                                            Anita Caron

automate updating ODK in some way

Related to the last comment, this was done in the PR https://github.com/INCATools/ontology-development-kit/pull/594, and it's available since version 1.3.1 ([Release Notes](https://github.com/INCATools/ontology-development-kit/releases/tag/v1.3.1)).

Add a standard pipeline step to export xrefs/mappings in SSSOM format

Related to https://github.com/obophenotype/uberon/pull/3061 done in Uberon. It needs SSSOM-java inside ODK (ref. PR #958)

adding present-in-taxon for hermaphrodite gonad, see https://github.com/geneontology/helpdesk/discussions/399

#gogoeditdiff

First attempt adding taxon constraint QC back

Superseded by #2928

taxon disjoints missing from locally built uberon.owl

- [X] Figure out where ('in taxon' some X) DisjointWith ('in taxon' some Y) live (look through uberon.makefile) This is not in the pipeline right now. We need to merge...

taxon disjoints missing from locally built uberon.owl

After refactoring the Makefile, the `ext.owl` artefact was removed because it was the same as `uberon.owl`. For now, the disjoints are only added in the QC.

Clarify CARO-Uberon connections

Completed by PR #2614.

multicellular organism and organism substance should be disjoint

@ddooley, the edit file is at `src/ontology/uberon-edit.obo`. But the disjoint file is at `src/ontology/components/external-disjoints.obo`

UBERON base approach

We imported the component with the properties chains for `develops_from` in the edit file. This will have the same reasoning result, but they will not be included in the base...

UBERON base approach

Finally, it's ready for final review and to be merged.