Issues

• linkml-validate: --fix crashes on any warning

  bugcommunity-generatedlinkml-validate
  linkml/linkml#4243 · Filter by author noelmcloughlin opened on Nov 12, 2026

• UserWarning: The parameter -V is used more than once. Remove its duplicate as parameters should be unique. encountered when running any gen-yaml command

  bugclicommunity-generatedgenerator-yaml
  linkml/linkml#4235 · Filter by author capsulecorplab opened on Nov 10, 2026
  

• Pydantic generator ignores boolean slot constraints

  bugcommunity-generatedgenerator-pydanticrules
  Bug

  linkml/linkml#4234 · Filter by author Silvanoc opened on Nov 10, 2026
  1

  

• two gen-doc bugs corrupting sites silently

  bugcommunity-generatedgenerator-doc
  linkml/linkml#4229 · Filter by author noelmcloughlin opened on Nov 7, 2026
  

• linkml-validate --config without positional data files validates nothing and reports success

  buglinkml-validate
  linkml/linkml#4227 · Filter by author turbomam opened on Nov 6, 2026
  

• Make the kitchen sink exercise imports properly

  enhancementtesting
  linkml/linkml#4224 · Filter by author matentzn opened on Nov 6, 2026
  

• Enable private vulnerability reporting and add a SECURITY.md

  linkml/linkml#4223 · Filter by author matentzn opened on Nov 6, 2026
  

• Dependency audit fails PRs on advisories they did not introduce

  linkml/linkml#4221 · Filter by author matentzn opened on Nov 6, 2026
  

• Rules cannot express non-Violation severity; ClassRule has no severity, every rule emits as Violation

  bugcommunity-generatedgenerator-shaclmetamodelrules
  linkml/linkml#4218 · Filter by author strass opened on Nov 6, 2026
  

• gen-shacl output churns thousands of lines when a class is added; existing shapes' content is unchanged

  bugcommunity-generatedgenerator-shacl
  linkml/linkml#4217 · Filter by author strass opened on Nov 6, 2026
  

• Compile rules to SHACL Core sh:or instead of SPARQL pattern-matching

  bugcommunity-generatedenhancementgenerator-shaclrules
  linkml/linkml#4216 · Filter by author strass opened on Nov 6, 2026
  1

  

• gen-xxx ignores --no-mergeimports

  bugcommunity-generatedgenerator-misc
  linkml/linkml#4212 · Filter by author nrinaudo opened on Nov 5, 2026
  

• a slot_usage in another schema changes the URI of an induced slot

  bugcommunity-generatedschemaview
  linkml/linkml#4210 · Filter by author noelmcloughlin opened on Nov 5, 2026
  

• gen-sqltables logs "Unknown range base" errors for curie, objectidentifier and nodeidentifier slots

  buggenerator-SQL
  linkml/linkml#4209 · Filter by author turbomam opened on Nov 4, 2026
  

• gen-python: enum meaning from import gets undefined namespace; full IRI meaning gets None

  bugcommunity-generatedgenerator-pythonprefixes
  linkml/linkml#4203 · Filter by author noelmcloughlin opened on Nov 3, 2026
  

• gen-sqlddl crashes on every MSSQL dialect

  bugcommunity-generatedgenerator-SQL
  linkml/linkml#4196 · Filter by author noelmcloughlin opened on Oct 31, 2026
  

• gen-sqlddl writes table CREATE INDEX lines in different order on each run

  bugcommunity-generatedgenerator-SQL
  linkml/linkml#4195 · Filter by author noelmcloughlin opened on Oct 31, 2026
  

• gen-json: drops "list_elements_unique" and list keywords inside slot any_of violating schema

  bugcommunity-generatedgenerator-jsonschema
  linkml/linkml#4194 · Filter by author noelmcloughlin opened on Oct 31, 2026
  

• gen-java: a class named "List" clashed with "java.util.List"

  bugcommunity-generatedgenerator-java
  linkml/linkml#4193 · Filter by author noelmcloughlin opened on Oct 31, 2026
  

• gen-owl drops structured_aliases, including their in_language

  buggenerator-owlSEMIC
  linkml/linkml#4190 · Filter by author matentzn opened on Oct 29, 2026
  

• SchemaLoader-based generators attribute the CC0 license of linkml:types to unlicensed schemas

  buggenerator-miscSEMIC
  linkml/linkml#4189 · Filter by author matentzn opened on Oct 29, 2026
  

• linkml-run-examples says no counter examples found when they are all YAML

  bugcli
  linkml/linkml#4187 · Filter by author turbomam opened on Oct 28, 2026
  

• gen-json-schema: --split for one JSON Schema document per module; cross-file $ref

  community-generatedenhancementgenerator-jsonschema
  linkml/linkml#4178 · Filter by author noelmcloughlin opened on Oct 25, 2026
  

• gen-json-schema: --def-name-style for $defs keys and $ref targets

  community-generatedenhancementgenerator-jsonschema
  linkml/linkml#4176 · Filter by author noelmcloughlin opened on Oct 25, 2026
  

• enum permissible_value with abstract: true attribute

  community-generatedenhancementmetamodel
  linkml/linkml#4172 · Filter by author ddooley opened on Oct 24, 2026