Biolink-model

-----
- Add RO mapping for gene/condition relations by cbizon in 1443
- fix whitespace issues by gprice1129 in 1441
- Adding 'phenotypic feature to disease association' plus related mixins by RichardBruskiewich in 1444
- Documentation bug fixes and adding more examples and visualizations to help with the treats migration by sierra-moxon in 1445

https://github.com/biolink/biolink-model/compare/v4.1.0...v4.1.1

-----
Summary: 4.1.0 implements the "treats" refactoring work, making "treats" a mixin. To view the new predicate
hierarchy around this "treats" refactoring, please see https://biolink.github.io/biolink-model/treats_dag.html.
This release also includes a number of bug fixes and documentation updates.

What's Changed
* ubergraph and sri-reference-kg/monarchinitiative infores updates by EvanDietzMorris in https://github.com/biolink/biolink-model/pull/1428
* Add infores validation checks to PRs and makefile target by sierra-moxon in https://github.com/biolink/biolink-model/pull/1434
* add canonical flag to superclass of by sierra-moxon in https://github.com/biolink/biolink-model/pull/1433
* make subclass of an inverse of superclass of by sierra-moxon in https://github.com/biolink/biolink-model/pull/1435
* make changes according to https://docs.google.com/spreadsheets/d/12SP… by sierra-moxon in https://github.com/biolink/biolink-model/pull/1436
* Adds infores:aop-cam (Adverse Outcome Pathways Casual Activity Models) by gaurav in https://github.com/biolink/biolink-model/pull/1437
* Treats visualization graph including mixins by sierra-moxon in https://github.com/biolink/biolink-model/pull/1439
* "max predicate approach" for refactoring "treats" by sierra-moxon in https://github.com/biolink/biolink-model/pull/1328
* Dec 2023 infores updates for Service Provider/BTE by colleenXu in https://github.com/biolink/biolink-model/pull/1429
* add context at beginning, fix some awkward wording of "using the modeling language documentation" by nlharris in https://github.com/biolink/biolink-model/pull/1438
**Full Changelog**: https://github.com/biolink/biolink-model/compare/v4.0.0...v4.1.0

-----
Summary: 4.0.0 is a major release that includes many changes to the documentation for Biolink Model as well
as the reorganization of the repository to support the new documentation structure and comply with LinkML best
practices. The model itself has not changed significantly, but the documentation has been updated to reflect
the current state of the model, and includes new visualizations of the model, additional text-based documentation,
and a new gh-pages documentation layout.

-----
What's Changed
* Removed auto deployment of documentation and artifacts in prep for doc refactor release
* adding aspect qualifier enums by EvanDietzMorris in https://github.com/biolink/biolink-model/pull/1380
* update name for gtrx infores source to match BTE's name. by sierra-moxon in https://github.com/biolink/biolink-model/pull/1384
* reorder id_prefixes for small molecule, fixes 1375 by sierra-moxon in https://github.com/biolink/biolink-model/pull/1376
* Update infores_catalog.yaml by beasleyjonm in https://github.com/biolink/biolink-model/pull/1389
* PFCOR->PFOCR by sierra-moxon in https://github.com/biolink/biolink-model/pull/1385
* Bump certifi from 2023.5.7 to 2023.7.22 by dependabot in https://github.com/biolink/biolink-model/pull/1382
* Created new class GeneAffectsChemicalAssociation with qualifiers by RichardBruskiewich in https://github.com/biolink/biolink-model/pull/1388
* Cx infores edits by colleenXu in https://github.com/biolink/biolink-model/pull/1391
* Update understanding-the-model.md by pabloDumas in https://github.com/biolink/biolink-model/pull/1394
* Fix answer appraiser infores by maximusunc in https://github.com/biolink/biolink-model/pull/1396
* Chemical prefixes - propagate id_prefixes down the chemical entity hierarchy by sierra-moxon in https://github.com/biolink/biolink-model/pull/1398
* Bump urllib3 from 2.0.2 to 2.0.6 by dependabot in https://github.com/biolink/biolink-model/pull/1397
* Fix foodb prefixes by cbizon in https://github.com/biolink/biolink-model/pull/1399
* Update xref URL for infores:arax in infores_catalog.yaml by saramsey in https://github.com/biolink/biolink-model/pull/1403
* add pydantic-v2 model by glass-ships in https://github.com/biolink/biolink-model/pull/1404
* Bump urllib3 from 2.0.2 to 2.0.7 by dependabot in https://github.com/biolink/biolink-model/pull/1400
* add semantic map to STY:T167, fixes 1370 by sierra-moxon in https://github.com/biolink/biolink-model/pull/1406
* Add qualifier to Association by kevinschaper in https://github.com/biolink/biolink-model/pull/1407
* Bump urllib3 from 2.0.2 to 2.0.7 by dependabot in https://github.com/biolink/biolink-model/pull/1409
* Adds `deprecated` as a node property slot added to `biolink:Entity` by kevinschaper in https://github.com/biolink/biolink-model/pull/1421
* Update infores_catalog.yaml by karafecho in https://github.com/biolink/biolink-model/pull/1422
* Update infores_catalog.yaml by karafecho in https://github.com/biolink/biolink-model/pull/1423

New Contributors
* pabloDumas made their first contribution in https://github.com/biolink/biolink-model/pull/1394
* maximusunc made their first contribution in https://github.com/biolink/biolink-model/pull/1396
* saramsey made their first contribution in https://github.com/biolink/biolink-model/pull/1403
* glass-ships made their first contribution in https://github.com/biolink/biolink-model/pull/1404

**Full Changelog**: https://github.com/biolink/biolink-model/compare/v3.5.4...v3.6.0

-----
Summary: infores catalog URL replacements with TranslatorWiki pages, and a few new infores entries.

* adding infores for MolePro new data source. by sierra-moxon in https://github.com/biolink/biolink-model/pull/1377
* many URL updates to the infores catalog to conform with Translator Wiki requirements.

**Full Changelog**: https://github.com/biolink/biolink-model/compare/v3.5.3...v3.5.4

-----
* fix: chemical-affects-gene-association aspect qualifier range by colleenXu in https://github.com/biolink/biolink-model/pull/1362
* add association slot annotation to support graphs slot, add 'semmed agreement count' as an association slot by sierra-moxon in https://github.com/biolink/biolink-model/pull/1364
* Adds synonym to named thing, removes it from gene by kevinschaper in https://github.com/biolink/biolink-model/pull/1369
* Update domain and range of gene condition association by nicholsn in https://github.com/biolink/biolink-model/pull/1367
* Bump certifi from 2023.5.7 to 2023.7.22 by dependabot in https://github.com/biolink/biolink-model/pull/1365

**Full Changelog**: https://github.com/biolink/biolink-model/compare/v3.5.2...v3.5.3