This release candidate is built from the LinkML monorepo refactor branch, with the expectation that it will be merged and released as LinkML v1.10.0 and LinkML-Runtime v1.10.0.

What's Changed

• 2856 pandera dict to list transforms by @tfliss in #2947
• Fix: Clean YARRRML generator output & CLI availability by @lapkinvladimir in #2973
• fix Decimal sqla mapping by @pizzashi in #2905
• Added pydantic_ifabsent_processor by @Chr1st0p43rR in #2962
• use a kwarg when calling pytest's _diff_text by @sneakers-the-rat in #2984
• Add links to new LinkML tutorial video and associated slides by @nlharris in #3001
• FAQ alternative frameworks for linkml paper revisions by @sierra-moxon in #3006
• 2856 Pandera generator association dependencies by @tfliss in #2946
• 2856 Change Pandera generator mixins to classes by @tfliss in #2948
• 2856 pandera render adapters by @tfliss in #2949
• 2856 refactor dataframe helper out of compliance test helper by @tfliss in #2951

New Contributors

• @pizzashi made their first contribution in #2905
• @Chr1st0p43rR made their first contribution in #2962

Full Changelog: v1.9.5...v1.9.6

What's Changed

• 2856 pandera dict to list transforms by @tfliss in #2947
• Fix: Clean YARRRML generator output & CLI availability by @lapkinvladimir in #2973
• fix Decimal sqla mapping by @pizzashi in #2905
• Added pydantic_ifabsent_processor by @Chr1st0p43rR in #2962
• use a kwarg when calling pytest's _diff_text by @sneakers-the-rat in #2984
• Add links to new LinkML tutorial video and associated slides by @nlharris in #3001
• FAQ alternative frameworks for linkml paper revisions by @sierra-moxon in #3006
• 2856 Pandera generator association dependencies by @tfliss in #2946
• 2856 Change Pandera generator mixins to classes by @tfliss in #2948
• 2856 pandera render adapters by @tfliss in #2949
• 2856 refactor dataframe helper out of compliance test helper by @tfliss in #2951

New Contributors

• @pizzashi made their first contribution in #2905
• @Chr1st0p43rR made their first contribution in #2962

Full Changelog: v1.9.5...v1.9.6-rc1

What's Changed

• permissible values: more compliance tests, fixing owlgen to properly encode all PVs by @cmungall in #2869
• Convert test_cli to pytest by @vladistan in #2855
• Bump actions/download-artifact from 4.3.0 to 5.0.0 by @dependabot[bot] in #2885
• Bump codecov/codecov-action from 5.4.3 to 5.5.0 by @dependabot[bot] in #2887
• Use full versions specs for all github actions by @vladistan in #2890
• Fix GraphQL generated scalars by @Silvanoc in #2707
• chore: add test dependencies to developer setup by @Silvanoc in #2906
• Pydantic fixes by @vladistan in #2829
• Report inconsistencies and fixed issues related to inlining in loader by @Silvanoc in #2819
• Rust generator for LinkML by @kervel in #2889
• fix: Handle special characters in slot names by @emmanuel-ferdman in #2908
• Feature: JSON-LD framing support by @lapkinvladimir in #2912
• fix(rdfgen): binary-safe output with -o by @lapkinvladimir in #2894
• 2776 Pandera support for inlined slots by @tfliss in #2803
• Add preserve_names option to documentation and JSON Schema generators by @saibalmars in #2881
• Respect include_null option for multivalued slots by @hugh-emerson in #2878
• Mask keywords by @EOltmanns in #2862
• Make optional lists empty instead of none (closes #2876) by @EOltmanns in #2877
• Remove erroneous @click.option definition (closes #2871) by @EOltmanns in #2872
• Bump pypa/gh-action-pypi-publish from 1.12.4 to 1.13.0 by @dependabot[bot] in #2922
• Bump docker/login-action from 3.5.0 to 3.6.0 by @dependabot[bot] in #2925
• Bump codecov/codecov-action from 5.4.3 to 5.5.1 by @dependabot[bot] in #2924
• Bump actions/setup-python from 5.6.0 to 6.0.0 by @dependabot[bot] in #2923
• OnePerClass linter rules for identifier and key attributes by @ialarmedalien in #2921
• Feature: YARRRML generator with CLI by @lapkinvladimir in #2934
• Update link to "intro to LinkML" slides by @nlharris in #2932
• Feature: JSON-LD framing with embedded context by @lapkinvladimir in #2931
• Addressing issues with the index CLI by @VictoriaSavage1NNL in #2904
• don't run the slow tests in the non-slow tests by @sneakers-the-rat in #2941
• Correct misconception about use of @type in JSON-LD @context by @Silvanoc in #2900
• refactor: move converter from utils by @Silvanoc in #2716
• Rustgen: ability to generate rust packages with ergonomic python bindings by @kervel in #2916
• Feature: Extend YARRRML generator with CSV/TSV source support by @lapkinvladimir in #2937
• fix compile errors in rust crate generated from tfliss toy schema by @kervel in #2930
• rustgen: minor cleanups by @kervel in #2919
• docs: Add how-to guide for implementing skip logic by @cmungall in #2918
• Enhance OWL enum/permissible value handling and add comprehensive test coverage by @cmungall in #2950
• Set inlining defaults by @Silvanoc in #2820

New Contributors

• @emmanuel-ferdman made their first contribution in #2908
• @lapkinvladimir made their first contribution in #2912
• @saibalmars made their first contribution in #2881
• @hugh-emerson made their first contribution in #2878
• @VictoriaSavage1NNL made their first contribution in #2904

Full Changelog: v1.9.4...v1.9.5

What's Changed

• refactor: move converter from utils by @Silvanoc in #2716
• Rustgen: ability to generate rust packages with ergonomic python bindings by @kervel in #2916
• Feature: Extend YARRRML generator with CSV/TSV source support by @lapkinvladimir in #2937
• fix compile errors in rust crate generated from tfliss toy schema by @kervel in #2930
• rustgen: minor cleanups by @kervel in #2919
• docs: Add how-to guide for implementing skip logic by @cmungall in #2918
• Enhance OWL enum/permissible value handling and add comprehensive test coverage by @cmungall in #2950

Full Changelog: v1.9.5-rc1...v1.9.5-rc2

What's Changed

• permissible values: more compliance tests, fixing owlgen to properly encode all PVs by @cmungall in #2869
• Convert test_cli to pytest by @vladistan in #2855
• Bump actions/download-artifact from 4.3.0 to 5.0.0 by @dependabot[bot] in #2885
• Bump codecov/codecov-action from 5.4.3 to 5.5.0 by @dependabot[bot] in #2887
• Use full versions specs for all github actions by @vladistan in #2890
• Fix GraphQL generated scalars by @Silvanoc in #2707
• chore: add test dependencies to developer setup by @Silvanoc in #2906
• Pydantic fixes by @vladistan in #2829
• Report inconsistencies and fixed issues related to inlining in loader by @Silvanoc in #2819
• Rust generator for LinkML by @kervel in #2889
• fix: Handle special characters in slot names by @emmanuel-ferdman in #2908
• Feature: JSON-LD framing support by @lapkinvladimir in #2912
• fix(rdfgen): binary-safe output with -o by @lapkinvladimir in #2894
• 2776 Pandera support for inlined slots by @tfliss in #2803
• Add preserve_names option to documentation and JSON Schema generators by @saibalmars in #2881
• Respect include_null option for multivalued slots by @hugh-emerson in #2878
• Mask keywords by @EOltmanns in #2862
• Make optional lists empty instead of none (closes #2876) by @EOltmanns in #2877
• Remove erroneous @click.option definition (closes #2871) by @EOltmanns in #2872
• Bump pypa/gh-action-pypi-publish from 1.12.4 to 1.13.0 by @dependabot[bot] in #2922
• Bump docker/login-action from 3.5.0 to 3.6.0 by @dependabot[bot] in #2925
• Bump codecov/codecov-action from 5.4.3 to 5.5.1 by @dependabot[bot] in #2924
• Bump actions/setup-python from 5.6.0 to 6.0.0 by @dependabot[bot] in #2923
• OnePerClass linter rules for identifier and key attributes by @ialarmedalien in #2921
• Feature: YARRRML generator with CLI by @lapkinvladimir in #2934
• Update link to "intro to LinkML" slides by @nlharris in #2932
• Feature: JSON-LD framing with embedded context by @lapkinvladimir in #2931
• Addressing issues with the index CLI by @VictoriaSavage1NNL in #2904
• don't run the slow tests in the non-slow tests by @sneakers-the-rat in #2941
• Correct misconception about use of @type in JSON-LD @context by @Silvanoc in #2900

New Contributors

• @emmanuel-ferdman made their first contribution in #2908
• @lapkinvladimir made their first contribution in #2912
• @saibalmars made their first contribution in #2881
• @hugh-emerson made their first contribution in #2878
• @VictoriaSavage1NNL made their first contribution in #2904

Full Changelog: v1.9.4...v1.9.5-rc1

What's Changed

• update linkml-runtime dependency by @sierra-moxon in #2870

Full Changelog: v1.9.4-rc1...v1.9.4-rc2

What's Changed

• Allow excluding abstract classes from ERD Diagram by @vladistan in #2840
• Sort output of ErdDiagram for repeatable output by @vladistan in #2846
• exclude entities from standard naming linter rule by @turbomam in #2793
• migrate to uv by @iQuxLE in #2779
• Update person schema by @vladistan in #2848
• Bump actions/checkout to v5 in github workflows (closes #2864) by @EOltmanns in #2865
• Update contributing.md by @cmungall in #2859
• Enabling some disabled schemaloader tests for improved test coverage by @ialarmedalien in #2834
• refactor: move cli utils by @Silvanoc in #2715
• Add tests to ensure that class_uri becomes exactMatch in JSON-LD and RDF by @Silvanoc in #2692

New Contributors

• @EOltmanns made their first contribution in #2865

Full Changelog: v1.9.3...v1.9.4-rc1

What's Changed

• Allow excluding abstract classes from ERD Diagram by @vladistan in #2840
• Sort output of ErdDiagram for repeatable output by @vladistan in #2846
• exclude entities from standard naming linter rule by @turbomam in #2793
• migrate to uv by @iQuxLE in #2779
• Update person schema by @vladistan in #2848
• Bump actions/checkout to v5 in github workflows (closes #2864) by @EOltmanns in #2865
• Update contributing.md by @cmungall in #2859
• Enabling some disabled schemaloader tests for improved test coverage by @ialarmedalien in #2834
• refactor: move cli utils by @Silvanoc in #2715
• Add tests to ensure that class_uri becomes exactMatch in JSON-LD and RDF by @Silvanoc in #2692
• update linkml-runtime dependency by @sierra-moxon in #2870

New Contributors

• @EOltmanns made their first contribution in #2865

Full Changelog: v1.9.3...v1.9.4

What's Changed

• update to linkml-runtime 1.9.4 by @sierra-moxon in #2839
• Fix doc generation to add PURL URIs for enums by @dalito in #2711

Full Changelog: v1.9.3-rc2...v1.9.3-rc3