Adding USGS Lithology term definitions

[brandonnodnarb]

Adding scope notes from USGS Lithology terms.

This is meant a test to discuss tags/annotation axioms.

Initial discussion points for the next SWEET working session:

1. dcterms:source links versus text
2. dcterms:creator vs dcterms:contributor vs other vs nothing
3. multiple dcterms:source tags versus dcterms:source and a skos:exactMatch tag

[cmungall]

Spurious diffs. See https://douroucouli.wordpress.com/2014/03/30/the-perils-of-managing-owl-in-a-version-control-system/

For OBO ontologies we use the ODK and ensure roundtripping through the owlapi to avoid spurious diffs

On Wed, Jan 17, 2024 at 1:14 PM rduerr @.***> wrote:

@.**** commented on this pull request.

On src/matrAnimal.ttl https://github.com/ESIPFed/sweet/pull/290#discussion_r1456492672:

What is with the extra space on the front of many of the subClassOf and label statements?

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[brandonnodnarb]

Thanks, @cmungall. This, and the rest of the definitions, will have been created using ROBOT templates. I suspect it's OWLAPI version mismatch issue. I am going through the ODK tutorials, but thanks for the tip.

[brandonnodnarb]

Per our SWEET Ontology Working Session yesterday, we discussed the following:

1. change skos:scopeNote to skos:definition irrespective of how the annotation is presented in the source vocab
2. dcterms:creator should be changed to something more appropriate for this task
   • prov:wasGeneratedBy could work; need to ensure object of statement is an agent instead of an action
   • dcterms:contributor could work
3. need a tag for reviewers of term relationships where appropriate
   • pro:reviewer from the 'Publishing Roles Ontology' (SPAR) seems intuitive; does it need further role setup?
   • dcterms:contributor could work if not used in 2 and assuming appropriate notes in documentation/wiki are added
4. where a link to a resource is available, useskos:exactMatch for the link as well as dcterms:source for the natural language text---e.g. "USGS Lithologic terms"
5. instead of embedding annotation axioms in source ontology module/turtle file, generate a separate ttl file for each vocabulary; similar to rdfs:comments from previous versions

[brandonnodnarb]

As per the notes, this PR is now stale. @brandonnodnarb will issue a new PR which reflects discussed changes.

[brandonnodnarb]

per Convo at today's meeting, suggest for

2. use dcterms:contributor
3. use CReDIT:validation