v1.6.0

This release is synced with linkml-model-1.6.0

https://github.com/linkml/linkml-model/releases/tag/v1.6.0

Metamodel changes

• Adding instantiates metaslot by @cmungall in linkml/linkml-model#163
• Adding AnyValue to the metamodel by @cmungall in linkml/linkml-model#164
• changing the range of extensions (annotation values) from string to AnyValue by @cmungall in linkml/linkml-model#162
• Added jsonpointer path types by @cmungall in linkml/linkml-model#159
• Added missing "not" to partial_match slot description by @pkalita-lbl in linkml/linkml-model#166

What's Changed

• fix(docgen): emphasizing multiline descriptions by @Silvanoc in #1351
• jsonschemavalidator should cache previous results of jsonschema generation by @cmungall in #1363
• Fix issue #1365 Type definitions not properly sorted in gen-python by @kervel in #1366
• logging in Excel generator by @sujaypatil96 in #1344
• Show min, max and pattern on slot pages by @sujaypatil96 in #1374
• notebook for Type Designators by @cmungall in #1378
• Add documentation about slot cardinality syntax by @sujaypatil96 in #1388
• howto docs for NDArray by @cmungall in #1376
• Misc. improvements to docgen by @sujaypatil96 in #1398
• slots modifying classes table by @amc-corey-cox in #1211
• Fix pydanticgen/pythongen to prevent code injection attacks by @ialarmedalien in #1402
• Configure use_enum_values to True on pydanticgen BaseModel by @kevinschaper in #1288
• Un-break the build (pydanticgen template fix) by @kevinschaper in #1414
• Ensure rules are translated at class level and optionally at top level by @pkalita-lbl in #1415
• Support has_member and all_members in JSON Schema generator by @pkalita-lbl in #1411
• Add schema validation to linkml-lint command by @pkalita-lbl in #1410
• pydanticgen: Include keys when checking for inlining by @cmungall in #1416
• jsonschemavalidator caching keyed on schema and entry point by @sujaypatil96 in #1420
• A first stab at a Golang generator by @jeff-cohere in #1418
• linkml-run-examples: validate from dict then try to instantiate by @cmungall in #1428
• Address linkml-convert issue in tutorial by @nicholsn in #1425
• Make Pydantic-generated required field have Field() not Field(None) by @rly in #1431
• regenerating test artefacts by @cmungall in #1437
• fixing spurious warnings by @cmungall in #1436
• Fix multivalued strings in typescriptgen by @kevinschaper in #1427
• Issue #1438 - required slots by @glass-ships in #1439
• Clean up print statements by @kevinschaper in #1442
• Fix erdiagramgen issue where mermaid output contains enum variable name by @nicholsn in #1433
• Adding compile_module to pydantic by @cmungall in #1377
• Update examples.ipynb by @andrawaag in #1443
• python 3.7 compatibility for pydanticgen by @kevinschaper in #1445
• Some workflow steps/jobs cannot run in forks by @Silvanoc in #1450
• add enum support to gen-typescript, fix it in gen-pydantic by @glass-ships in #1455
• Improve handling of range unions in jsonschemagen by @pkalita-lbl in #1461
• pydanticgen any_of conflict with default range by @kevinschaper in #1460
• Make hierarchical indented rendering of class table default by @sujaypatil96 in #1458
• Correct gen-doc command by @AlasdairGray in #1464
• Fix owlgen bug where JsonObjs were being ommitted, 1463. by @cmungall in #1466
• moving some dependencies to dev dependencies. Fixes 1467 by @cmungall in #1468
• fix #1472 by @nlharris in #1476
• Fix LinkML types appearing in generated JSON Schema by @pkalita-lbl in #1475
• Fix conversion to JSON-LD by @Silvanoc in #1482
• Delete [ character that was truncating hyperlink text (fixes #1473) by @eecavanna in #1477
• Add option to assert equivalentClass between a class and its class_uri by @deepakunni3 in #1484
• Various minor tune ups while going through the docs by @yarikoptic in #1491
• Codespell: config, workflog + some typos fixed by @yarikoptic in #1490
• Adding a how-to for combining LinkML and OpenAI 1499 by @cmungall in #1500
• Iterate over all errors found in JsonSchemaDataValidator by @pkalita-lbl in #1502
• More of codespell inspired fixes for some manually selected words by @yarikoptic in #1498
• Fix JsonSchemaDataValidator interaction with example runner by @pkalita-lbl in #1504
• Validation CLI improvements by @pkalita-lbl in #1510
• Add slot definitions for Tutorial 7 by @nicholsn in #1518
• Fix missing simple data types by @anjastrunk in #1523
• Include code quality checks in main workflow by @pkalita-lbl in #1520
• Fix shaclgen formatting by @pkalita-lbl in #1529
• update markdown generator documentation by @sujaypatil96 in #1528
• Documentation updates by @cmungall in #1527
• markdown documentation generation docs rst fixes by @sujaypatil96 in #1530
• Add pre-commit config by @pkalita-lbl in #1537
• Fix broken links in docs by @rly in #1539
• allow both UML class and ER diagrams in docgen by @sujaypatil96 in #1541
• feat(validators): add option include descendants by @Silvanoc in #1543
• New cross-generator compliance test suite. by @cmungall in #1551
• Adding FAQ for JSON-LD by @cmungall in #1558
• fix unique_keys example by @saerdnaer in #1562
• Port tests/test_issues directory to pytest framework by @pkalita-lbl in #1563
• Generate permissible JSON schema for empty enum by @lkuchenb in #1559
• Add optimizations to reduce compliance test run time by @pkalita-lbl in #1566
• Fix issues identified by Ruff v0.0.284 by @pkalita-lbl in #1576
• Add option to generate Pydantic v2 by @glass-ships in #1575
• Update jinja template for subset documentation by @sujaypatil96 in #1564
• Pluggable validation module by @pkalita-lbl in #1517
• Update snapshots with changes from latest metamodel by @pkalita-lbl in #1587
• Convert tests/test_generators to pytest by @pkalita-lbl in #1586
• feat: add support for plantuml generated diagrams by @Silvanoc in #1509
• convert plantUML generator tests to pytest by @sujaypatil96 in #1591
• fix: check imported prefixes for default_prefix by @noelmcloughlin in #1505
• Update sqlalchemy.rst fix link to sqla site by @cmungall in #1599
• jsonschemagen includes descendants for range by default for type-designated classes. by @cmungall in #1613
• Adding presence_enum to jsonschemagen by @cmungall in #1616
• Make closed state configurable by @anjastrunk in #1593
• Add a schema transformer to make logical constraint models. by @cmungall in #1572
• Modified tutorial to make age explicitly a string in part1. by @cmungall in #1615
• Fixes #1162 by @cmungall in #1624
• Propagate pattern from type declarations fixes #1371 by @cmungall in #1623
• Fix some typos by @yarikoptic in #1631
• Add codecov config making coverage reports informational only by @pkalita-lbl in #1635
• fixing some small doc typos by @RichardBruskiewich in #1637
• allow polymorphism for dataclasses using type designators by @cmungall in #1617
• owlgen refactor v2 by @cmungall in #1646
• 1.6.0 release candidate by @cmungall in #1649

New Contributors

• @Silvanoc made their first contribution in #1351
• @jeff-cohere made their first contribution in #1418
• @nicholsn made their first contribution in #1425
• @rly made their first contribution in #1431
• @glass-ships made their first contribution in #1439
• @andrawaag made their first contribution in #1443
• @AlasdairGray made their first contribution in #1464
• @eecavanna made their first contribution in #1477
• @yarikoptic made their first contribution in #1491
• @anjastrunk made their first contribution in #1523
• @saerdnaer made their first contribution in #1562
• @lkuchenb made their first contribution in #1559

Full Changelog: v1.5.0...v1.6.0