v1.7.11rc1 Embed extra metadata in modules

What's Changed

• [pydanticgen] Embed extra metadata in modules, classes, and fields by @sneakers-the-rat in #2036

Full Changelog: v1.7.10...v1.7.11rc1

v1.7.10

What's Changed

• [poetry] Update Lockfile by @linkml-pr-bot in #2098
• Adding link to expr lang docs by @cmungall in #2086
• Fix typo in docs (add missing closing parenthesis) by @eecavanna in #2097
• Update slot cardinality meaning on main linkml docs site by @sujaypatil96 in #2100
• genshacl: fix the propagation of types to SHACL sh:datatype and sh:nodeKind by @jsheunis in #2102
• Autodetect pydantic version in gen-pydantic issue #2077 by @manulera in #2078

New Contributors

• @jsheunis made their first contribution in #2102
• @manulera made their first contribution in #2078

Full Changelog: v1.7.9...v1.7.10

v1.7.9

What's Changed

• Add --without-cache option to tests by @sneakers-the-rat in #2051
• Add deprecations module and add deprecation warnings for pydantic v1 by @sneakers-the-rat in #1957
• feat: add '--version' to linkml-run-examples by @Silvanoc in #2058
• Pass strings rather than printing to stdout in generators by @sneakers-the-rat in #2061
• [poetry] Update Lockfile by @github-actions in #2056
• Use app installation token in poetry update workflow by @pkalita-lbl in #2062
• [poetry] Update Lockfile by @linkml-pr-bot in #2066
• Make class blocks in mermaid class diagrams clickable/hyperlinked by @sujaypatil96 in #2065
• Display single/multi-valuedness (cardinality) on slot edges by @sujaypatil96 in #2071
• [poetry] Update Lockfile by @linkml-pr-bot in #2075
• Documentation: Recommend the official docker image in docs and improve structure of installation intro by @mkbrechtel in #2073
• Improve Dockerfile: Update Baseimages, make build work with Buildah/Podman and install python packages globally in runner by @mkbrechtel in #2074
• [poetry] Update Lockfile by @linkml-pr-bot in #2083
• Ensure consistency of cardinality displayed on edges of Mermaid class diagram by @sujaypatil96 in #2080
• Minor fixes and improvements to text by @nlharris in #2082
• Add generator flag to include an import outside the normal import mechanism by @sierra-moxon in #2079
• plantuml: hide circle and empty members, remove quotes by @VladimirAlexiev in #2060
• Clarify use of slack channel in contribution docs by @matentzn in #2093
• Allow control over which OWL types are used for enums. Fixes #2090 by @cmungall in #2095
• validator: support including validator context when reporting errors by @paulmillar in #2089

New Contributors

• @github-actions made their first contribution in #2056
• @linkml-pr-bot made their first contribution in #2066
• @mkbrechtel made their first contribution in #2073
• @VladimirAlexiev made their first contribution in #2060
• @matentzn made their first contribution in #2093

Full Changelog: v1.7.8...v1.7.9

v1.7.8

What's Changed

• Ensure unique key constraints on foreign keys are mapped in SQL transform. by @cmungall in #2035
• fix link to "inlining" documentation by @nlharris in #2039
• Fix testing infrasucture for Pydantic 2 default by @pkalita-lbl in #2041
• [perf] Finish putting file I/O behind --with-output flag in compliance tests (and other free perf) by @sneakers-the-rat in #2045
• Issue 2037: extend shaclgen.py to add the suffix "Shape" to the generated SHACL shape by @robertschubert in #2038
• Make docs dependencies optional and in a separate group by @sneakers-the-rat in #1991
• Optimize logic in subset.md.jinja2 by @sujaypatil96 in #2046
• [tests] Remove test outputs and GeneratorTestCase by @sneakers-the-rat in #1976
• WIP: Tests remove testcase by @pkalita-lbl in #2048
• Automatically PR to update poetry lockfile v3 by @sneakers-the-rat in #2044
• convert test_data to pytest by @sneakers-the-rat in #2050
• Run code quality checks only once in testing workflow by @pkalita-lbl in #2055
• convert enhancements to pytest by @sneakers-the-rat in #2052

New Contributors

• @robertschubert made their first contribution in #2038

Full Changelog: v1.7.7...v1.7.8

v1.7.7 (array support)

Highlights

• [pydanticgen] Add list of lists array implementation by @rly @sneakers-the-rat in #1887

This release sees the first implementation of the array spec in pydanticgen.

An overview of arrays is present in the schema guide: https://linkml.io/linkml/schemas/arrays

With the introduction of the 1.7.0 it has been possible to represent N-dimensional arrays, e.g.

MyClass:
  attributes:
    data:
      range: integer
      array:
        minimum_number_dimensions: 3
        maximum_number_dimensions: 5

This release equips pydanticgen with the ability to translate these to nested lists, and lays the framework for representation using numpytyping.

This implementation is the result of heroic efforts by the @linkml/ndarray-wg, and in particular, @sneakers-the-rat and @rly

🙏 🙏 🙏

What's Changed

• Fix Node Kind for Custom Class Ranges by @vincentkelleher in #2003
• Adding documentation for linkml expression language by @turbomam in #2011
• owlgen - skip nested annotations by @cmungall in #2013
• Adding compliance tests for importing and subsetting metamodel, fixes #2015 by @cmungall in #2016
• Update lockfile by @sneakers-the-rat in #2002
• Use fetch-depth: 0 in docker-build workflow by @pkalita-lbl in #2022
• JSON-LD Context Generator Fixes by @vincentkelleher in #1981
• Automatically PR to update poetry lockfile by @sneakers-the-rat in #2023
• Add support for Python 3.12 by @Silvanoc in #1704
• [pydanticgen] Add list of lists array implementation by @rly @sneakers-the-rat in #1887
• Adding ifabsent tests. by @cmungall in #2014
• Automatically PR to update poetry lockfile v2 by @sneakers-the-rat in #2028
• optimize rendering of Applicable classes section on slot documentation pages by @sujaypatil96 in #2009

Full Changelog: v1.7.6...v1.7.7

v1.7.6

What's Changed

• Cache network requests during tests by @sneakers-the-rat in #1949
• Pydanticgen - Modularize template by @sneakers-the-rat in #1927
• Account for any_of ranges in documentation pages by @sujaypatil96 in #1856
• Unbreak the docs & test them by @sneakers-the-rat in #1954
• [pydanticgen] Replace classmethod-property chain with init subclass by @sneakers-the-rat in #1959
• Add any_of implementation to shaclgen.py by @anjastrunk in #1601
• Support ifabsent in the Shacl generator by @vincentkelleher in #1964
• remove tab in biolink model by @sneakers-the-rat in #1971
• Replace metamodel with kitchen sink in script tests by @sneakers-the-rat in #1969
• [docker] Fix error from COPY .git directory by using ADD by @sneakers-the-rat in #1980
• Add debug logs to doc-gen by @timothy-trinidad-ps in #1974
• Allow multiple files to be passed to linkml-sqldb dump by @cmungall in #1985
• Cast rdflib Namespace instances to strings when used as base for contextgen by @sneakers-the-rat in #1982
• Adding imports tests to compliance test suite. by @cmungall in #1987
• use typing version of Tuple, not class for 3.8 compat by @sneakers-the-rat in #1989
• Linter: add patterns in config for classes and slots by @linupi in #1979
• Fixing test for #25 by explicitly invoking jsonld1.1. by @cmungall in #1995
• Make pyshacl an extra by @sneakers-the-rat in #1992
• Include python version in CI cache key by @sneakers-the-rat in #1990

New Contributors

• @vincentkelleher made their first contribution in #1964
• @timothy-trinidad-ps made their first contribution in #1974
• @linupi made their first contribution in #1979

Full Changelog: v1.7.5...v1.7.6

v1.7.5

What's Changed

• Fix docstrings by @bendichter in #1929
• Update sqlalchemygen.py style by @bendichter in #1904
• Perf: Mark shex generator as slow, skip except for gh actions runner by @sneakers-the-rat in #1921
• change methods to static where appropriate by @bendichter in #1908
• Add suggestions of permissive licenses by @nlharris in #1928
• Update gen-json-schema command in tutorial to use --top-class option by @pkalita-lbl in #1931
• [QoL] Make generating output optional in compliance tests by @sneakers-the-rat in #1941
• [QoL] Quiet warnings by @sneakers-the-rat in #1939
• Deprecate SQLDDLGenerator and change references to SQLTableGenerator by @sneakers-the-rat in #1940
• additional tests for patterns, mixins, and abstract classes. by @cmungall in #1947

Full Changelog: v1.7.4...v1.7.5

v1.7.4

What's Changed

• fix some grammatical errors by @bendichter in #1913
• Pydanticgen: Inject imports, slots, and classes by @sneakers-the-rat in #1916
• remove mutables as default arguments by @bendichter in #1912
• Adding tests for empty preconditions in rules. by @cmungall in #1926
• Add timeout to requests by @sneakers-the-rat in #1918
• fixing context generator for any_of with range by @djarecka in #1898

New Contributors

• @djarecka made their first contribution in #1898

Full Changelog: v1.7.3...v1.7.4

v1.7.3

What's Changed

• Add blurb about dev environment setup to contributing guide by @pkalita-lbl in #1892
• pydanticgen enum titles (issue 1810) by @kevinschaper in #1891
• Updating the docs on NDArrays to reflect 1.7 changes by @cmungall in #1893
• Correct import for sqlalchemy.pool.StaticPool by @bendichter in #1895
• Adding support for serializing inlined tuples as simple dicts in pydantic. by @cmungall in #1869
• Additional owlgen compliance tests. by @cmungall in #1894
• add database files to .gitignore by @bendichter in #1906
• Fix tutorial09.md typos by @bendichter in #1903
• Poetry extras removal by @dalito in #1900
• rmv unnecessary default_factories by @bendichter in #1905
• Update doc build instructions and add makefile command to build docs by @dalito in #1899
• Foreign keys should be of same type as the primary key they reference by @noahhl in #1907
• Pydantic generated models require importing Decimal by @noahhl in #1911

New Contributors

• @noahhl made their first contribution in #1907

Full Changelog: v1.7.2...v1.7.3

v1.7.2

What's Changed

• restore auto-versioning by @cmungall in #1886

Full Changelog: v1.7.0...v1.7.2