linkml 1.9.0rc1__py3-none-any.whl → 1.9.1__py3-none-any.whl

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (82) hide show
  1. linkml/generators/common/build.py +1 -7
  2. linkml/generators/common/ifabsent_processor.py +20 -20
  3. linkml/generators/common/lifecycle.py +2 -1
  4. linkml/generators/common/naming.py +1 -1
  5. linkml/generators/common/template.py +5 -5
  6. linkml/generators/common/type_designators.py +1 -3
  7. linkml/generators/csvgen.py +3 -3
  8. linkml/generators/docgen.py +20 -25
  9. linkml/generators/dotgen.py +4 -4
  10. linkml/generators/erdiagramgen.py +7 -7
  11. linkml/generators/excelgen.py +2 -3
  12. linkml/generators/golanggen.py +2 -2
  13. linkml/generators/golrgen.py +3 -3
  14. linkml/generators/jsonldcontextgen.py +4 -4
  15. linkml/generators/jsonschemagen.py +5 -5
  16. linkml/generators/markdowngen.py +8 -10
  17. linkml/generators/mermaidclassdiagramgen.py +2 -2
  18. linkml/generators/oocodegen.py +10 -10
  19. linkml/generators/owlgen.py +19 -18
  20. linkml/generators/plantumlgen.py +15 -15
  21. linkml/generators/prefixmapgen.py +5 -5
  22. linkml/generators/projectgen.py +10 -10
  23. linkml/generators/pydanticgen/array.py +15 -21
  24. linkml/generators/pydanticgen/build.py +4 -4
  25. linkml/generators/pydanticgen/includes.py +1 -1
  26. linkml/generators/pydanticgen/pydanticgen.py +24 -28
  27. linkml/generators/pydanticgen/template.py +36 -36
  28. linkml/generators/pythongen.py +21 -29
  29. linkml/generators/rdfgen.py +2 -2
  30. linkml/generators/shaclgen.py +9 -9
  31. linkml/generators/shexgen.py +3 -3
  32. linkml/generators/sparqlgen.py +3 -3
  33. linkml/generators/sqlalchemygen.py +2 -2
  34. linkml/generators/terminusdbgen.py +2 -3
  35. linkml/generators/typescriptgen.py +3 -3
  36. linkml/generators/yumlgen.py +13 -13
  37. linkml/linter/cli.py +1 -1
  38. linkml/linter/config/datamodel/config.py +207 -213
  39. linkml/linter/config/datamodel/config.yaml +51 -3
  40. linkml/linter/config/default.yaml +3 -0
  41. linkml/linter/formatters/markdown_formatter.py +2 -2
  42. linkml/linter/linter.py +4 -3
  43. linkml/linter/rules.py +38 -19
  44. linkml/reporting/model.py +11 -15
  45. linkml/transformers/logical_model_transformer.py +9 -8
  46. linkml/transformers/relmodel_transformer.py +6 -6
  47. linkml/transformers/schema_renamer.py +2 -2
  48. linkml/utils/converter.py +1 -1
  49. linkml/utils/deprecation.py +3 -3
  50. linkml/utils/execute_tutorial.py +5 -6
  51. linkml/utils/generator.py +17 -16
  52. linkml/utils/helpers.py +2 -2
  53. linkml/utils/logictools.py +5 -4
  54. linkml/utils/mergeutils.py +51 -5
  55. linkml/utils/schema_builder.py +8 -8
  56. linkml/utils/schema_fixer.py +8 -8
  57. linkml/utils/schemaloader.py +16 -15
  58. linkml/utils/schemasynopsis.py +29 -29
  59. linkml/utils/sqlutils.py +5 -5
  60. linkml/utils/typereferences.py +5 -6
  61. linkml/utils/validation.py +2 -2
  62. linkml/validator/cli.py +7 -6
  63. linkml/validator/loaders/delimited_file_loader.py +2 -1
  64. linkml/validator/loaders/json_loader.py +2 -1
  65. linkml/validator/loaders/loader.py +2 -1
  66. linkml/validator/loaders/passthrough_loader.py +2 -1
  67. linkml/validator/loaders/yaml_loader.py +2 -1
  68. linkml/validator/plugins/jsonschema_validation_plugin.py +2 -1
  69. linkml/validator/plugins/pydantic_validation_plugin.py +2 -1
  70. linkml/validator/plugins/recommended_slots_plugin.py +3 -2
  71. linkml/validator/plugins/shacl_validation_plugin.py +2 -1
  72. linkml/validator/plugins/validation_plugin.py +1 -1
  73. linkml/validator/report.py +3 -3
  74. linkml/validator/validator.py +3 -2
  75. linkml/validators/jsonschemavalidator.py +6 -5
  76. linkml/workspaces/datamodel/workspaces.py +21 -26
  77. linkml/workspaces/example_runner.py +7 -6
  78. {linkml-1.9.0rc1.dist-info → linkml-1.9.1.dist-info}/METADATA +6 -9
  79. {linkml-1.9.0rc1.dist-info → linkml-1.9.1.dist-info}/RECORD +82 -82
  80. {linkml-1.9.0rc1.dist-info → linkml-1.9.1.dist-info}/WHEEL +1 -1
  81. {linkml-1.9.0rc1.dist-info → linkml-1.9.1.dist-info}/LICENSE +0 -0
  82. {linkml-1.9.0rc1.dist-info → linkml-1.9.1.dist-info}/entry_points.txt +0 -0
@@ -7,13 +7,13 @@ linkml/generators/PythonGenNotes.md,sha256=wb9BPLLhF6378OKLbwSBAwmniLpwrcT5_bbfC
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  linkml/generators/README.md,sha256=RMzT8EblC_GEdPy5WyfXHDBXlFI6k6mz3Cx2sdpcyWI,4438
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  linkml/generators/__init__.py,sha256=2qSOnibL6KtzBW3KNqVX1gx1LQttrXlOPbbVDLLV2go,1587
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  linkml/generators/common/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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- linkml/generators/common/build.py,sha256=AR1jnMzE7WXBlLCX1qdgilj8qmBHRWFwsNx9nw2RBzQ,2928
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- linkml/generators/common/ifabsent_processor.py,sha256=hVm6mKq8qciL5Fa53TAtGO8ZJnbRuktvJnaA6-HutTk,13533
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- linkml/generators/common/lifecycle.py,sha256=We0h_GeyL1biDaXCsd0ENWqGMpgtDbWOMCk-1-JJTD4,5514
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- linkml/generators/common/naming.py,sha256=AsLJ7e87TU_SnAM0Sy7q9HZc-qXvyIuqHt1CoHV-Y3Y,5089
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- linkml/generators/common/template.py,sha256=bjcSNiC85MYl9oGhk0ZpqwZpRxxy_NqxG8XBV-TXXDY,3338
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- linkml/generators/common/type_designators.py,sha256=lgVcIRJJ-yCvVGeP9U_gQZpm77UmJBQo9Bh3lGJITno,1956
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- linkml/generators/csvgen.py,sha256=O20K3IuDxomGJAyNFJmm1_HbPyl6xUK0l-aKY0A3KcM,3253
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+ linkml/generators/common/build.py,sha256=X2QDnybdr5GwDIaXWfwAzIqduqk7_rDReU-7CvcJ2OI,2835
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+ linkml/generators/common/ifabsent_processor.py,sha256=qefNF_rd24DxF4IGAynR9J7zWGH-oMfDULNbFMvZalA,13527
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+ linkml/generators/common/lifecycle.py,sha256=Rx9q8shhS_e-4Hx_06wOVR1ZW7I3rqNS8_bOM-r9eCw,5541
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+ linkml/generators/common/naming.py,sha256=KkY3KCTX3DM30VbPjfIS6icEc-IxUNF9hE8GXreDAv4,5081
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+ linkml/generators/common/template.py,sha256=AmHcTlPnN23H4IvuX70AiTRzd-V16zNFBb7d3cCntFU,3326
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+ linkml/generators/common/type_designators.py,sha256=ORA9siVxHUXqn3TMuun81m_whqZcX3Zrnn1FDf6dK7c,1931
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+ linkml/generators/csvgen.py,sha256=gPwX5GuwToD2KQF7SrINatqwMYY-54ZsgDTgYH1EM1Y,3242
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  linkml/generators/dbmlgen.py,sha256=IrtY65iFdXg4wHBP9vHQeV20HUOUB1XlggPtmt_YvGM,5466
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@@ -25,37 +25,37 @@ linkml/generators/docgen/schema.md.jinja2,sha256=b52xmnlTheigxKgP_2Sq1nnQUEW6XNi
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- linkml/generators/docgen.py,sha256=iDSu2LsZ7MStrzXdxFwK-oBlVevq2MwBc1n5WzHzTyw,38996
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- linkml/generators/dotgen.py,sha256=vjHveFtKBItHRkowi1I4FHffcn4u4wLpBydYgVxB-vE,5028
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- linkml/generators/erdiagramgen.py,sha256=BteqzyVgKeUXfdCq3VHiiJMbuMrsn_D08IoNq8QMBcY,11462
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- linkml/generators/excelgen.py,sha256=MQRRm1wDbg7auUQH9tGb5aRyrp-e4gjXsY10aoLb9LI,7708
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- linkml/generators/golanggen.py,sha256=Qx1GZRIrKn8jNoO-8fJMjkrwV9ZLwR4NwYBW5kGGp9c,5840
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- linkml/generators/golrgen.py,sha256=JB92VDhTuwyaOyxHxB4goIsjZbq4NMf36ESprC3GeBs,3454
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+ linkml/generators/docgen.py,sha256=st4g-1QucP0HIVAWSK_Eahv9pPKBz-lOzf06j2yy-Qc,38890
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+ linkml/generators/dotgen.py,sha256=DR1tC-vZ7Vj-NxEkE-zOPGrwPUIk5Bo2LISsJpS0rUk,5022
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+ linkml/generators/erdiagramgen.py,sha256=_NVBq7RzJNDZPjMtb0NYE_mbYrOyZVG-8uqGy5J5KC0,11451
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+ linkml/generators/excelgen.py,sha256=81x0Ib13ZjLC5WBWsH0aePn8swv_pjZnwV4X-T4q4Jc,7684
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+ linkml/generators/golanggen.py,sha256=oBXY0gUz2OzI8uKjubUT9WeBJ4TdoOYUqXxNqeEG1gM,5834
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+ linkml/generators/golrgen.py,sha256=92hswWdusngnGDGD3vpX_iHbIDYRZrRV5xWkpxG7nxw,3448
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  linkml/generators/graphqlgen.py,sha256=belU4f89vBHoHBipaMkHiE_ND42IV7L0Zp4akL9sQWk,3484
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  linkml/generators/javagen/example_template.java.jinja2,sha256=ec4CVTv_0zS7V5Y-1E6H4lRraya10gfX7BEMBlu38X4,444
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- linkml/generators/jsonldcontextgen.py,sha256=LpuTtzU4H6BH_615E4Fbt0QBCEopvqRMVOMwDva1kGk,8958
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+ linkml/generators/jsonldcontextgen.py,sha256=3bu4OY4t5eyiCghXJZ1m9mGPrLpHcJ2ap21Cov_IWpM,8947
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- linkml/generators/jsonschemagen.py,sha256=8luthDkItlZ5bU4Lxt9b7tZx0HTIP4FZEZ5C2nwMMqA,30867
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+ linkml/generators/jsonschemagen.py,sha256=F2lJCS-8cSYRgljh-6OM395aCeL2Fb3Qx6gB2X2mXXw,30848
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  linkml/generators/legacy/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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- linkml/generators/markdowngen.py,sha256=0gjMPJ0Ycm9se4Y4cyqjbTntGYqRRZu4RL-9Qf5n4lk,34464
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- linkml/generators/mermaidclassdiagramgen.py,sha256=NzRDXmy2qMOUHmvrcd7LrKZiVR1J___pLRhQpGstGyA,4946
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+ linkml/generators/markdowngen.py,sha256=QkZ-LDT_Vm9gmHDFhVPFFR2oqPA-xATYgEYZS8bbVAE,34403
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+ linkml/generators/mermaidclassdiagramgen.py,sha256=S-fsMKZrR4BxDD1eK7TZBEaF4JuDzhBdzx3z7SBT2ds,4940
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- linkml/generators/oocodegen.py,sha256=aBJgy-S-8FL5cW9p4hf986iSTxXwvkM7ZajKlari4us,7820
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- linkml/generators/owlgen.py,sha256=FxfEpJSybw11qEjcE3ozVvFuu_eKp1qhQmFOK566CGg,58086
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- linkml/generators/plantumlgen.py,sha256=G12fBFh8qqHuXTtGEndcQJzAtarWJFE7qcUaMXLTJrE,15614
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- linkml/generators/prefixmapgen.py,sha256=oISFtSt_s5OWx65tYasWk0bUJIDIU1MjnsWqfBE7ZQA,4257
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- linkml/generators/projectgen.py,sha256=XQdOjAJroroT2JNNPbrUauv2DTJ3tfJoFNYGSLKky24,9791
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+ linkml/generators/oocodegen.py,sha256=dgcHhpO81qC2Tx-kG_VhZVaoRjOwrcrulIXV8gEU1bY,7808
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+ linkml/generators/owlgen.py,sha256=HcW5EIohi9YMd6pXH62bAesZrrbBt5H8-4eQ3Eab6ow,58095
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+ linkml/generators/plantumlgen.py,sha256=S05S13kxDLeKJihZ7BZesuj_8-tQUzsWjL6S478dzQg,15603
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+ linkml/generators/prefixmapgen.py,sha256=X-3K1q5WcSS8TL7rHBOL4qBGBk2Szr7l1_UzRQVvFGA,4246
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+ linkml/generators/projectgen.py,sha256=vPaCv8Qf3rwi2aPlEpFc2-Q27ed9WwZiJfseZvflIXU,9764
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- linkml/generators/pydanticgen/array.py,sha256=ELAH-KyJwDX69q3ANlyyFJqvEpU30XSY1Ztu2sh4M0E,25956
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+ linkml/generators/pydanticgen/array.py,sha256=TD3_LStHfGGY1TI7jn_9DeyvLMBmgM4kc0JeOWGzSbs,25803
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- linkml/generators/pydanticgen/build.py,sha256=xWNnxaNz0LqfNpgUuaUeVdvmXyFASwv5QED3bEaUVaM,4093
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- linkml/generators/pydanticgen/includes.py,sha256=kDAwonKbhTFzrFa2TrmTYuOSHXuzDy5WHgBaI5nVY6c,504
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- linkml/generators/pydanticgen/pydanticgen.py,sha256=IEmSPr9zu1dkgIMFvVKDswokhQvM_weXdmVNQ3l3eNQ,49938
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- linkml/generators/pydanticgen/template.py,sha256=wjUMiTay_EFh8zp5LfytBsgZJGlKjV96PVnBgI21KVc,24886
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+ linkml/generators/pydanticgen/build.py,sha256=KVRiaJ-o1OuRGyeli8PYDOJPqeSVoKfoibsjffoXeFU,4064
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+ linkml/generators/pydanticgen/includes.py,sha256=UaMYaO8hKE7oV14mXr2xJK72bmYlJLO_Rh7QWDgKy3I,504
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+ linkml/generators/pydanticgen/pydanticgen.py,sha256=kRSMeHbmliayjyvHYtSJT31q_XEaQnGcWNEi0ne-krs,49794
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+ linkml/generators/pydanticgen/template.py,sha256=Cq9jAi8P-MXOfM3Azt1uZPxSJbvqVI8GfWA62rDpZMo,24839
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- linkml/generators/rdfgen.py,sha256=OT8oS8MPUVf5UK3OKvRWgAh9iQiWwdyWJSA69PncOw4,2969
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+ linkml/generators/pythongen.py,sha256=LDYQxtl4PEDmzX4e9mR9DQ2X9ANcE3vIOI4JMwnl8R8,55769
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+ linkml/generators/rdfgen.py,sha256=33m01NKAF-AfOLwq_g6I9itle43_u4Ek10mLT8mmuYs,2963
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- linkml/generators/shexgen.py,sha256=cr4x4ORZlre6XlToWKho5F4XjFwOlzR1SpOpbeOvRA4,9939
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- linkml/generators/sparqlgen.py,sha256=2DaFrFIeMI7QQfiPn79J8ERILlkJALrabDnKK7usDJQ,6188
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+ linkml/generators/shaclgen.py,sha256=pidElJptVQVTlsbOrZoClNx77FNzTSnTCNJzBJaXD7k,15277
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+ linkml/generators/shexgen.py,sha256=fVwrYRifsojiPu6vM1oNwnkSEp4uX-QognHOExJs0cY,9933
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+ linkml/generators/sparqlgen.py,sha256=cgl8x858i4XAK8pN_Txi26uKtl3sb7IZuBd9xsLr3pQ,6176
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- linkml/generators/terminusdbgen.py,sha256=ItJ-HTMkkX22Ex1-UjJZmtEtE2fn6UdjAxDtn20RXV8,4713
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  linkml/utils/exceptions.py,sha256=3S6lf5WAUgVvjPRaES597_YjUjbbJ5KqjKjpjcaRLoU,217
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  linkml/utils/rawloader.py,sha256=nUB8Gfn8yEVwyo6bx0TtB2mBGkilC-fybi0xvQ73Gks,4417
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  linkml/validator/validation_context.py,sha256=Pmccq-LQ9iEeLyZhamp3mKjjtwp4ji1hIe5TT05AUT4,2732
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  linkml/validators/__init__.py,sha256=43W3J5NPKhwa3ZFHLRYsJMocwQKWGYCF9Ki9r0ccGbc,202
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- linkml/validators/jsonschemavalidator.py,sha256=jrUWbQo4Uy85SLtxyu3LPdgcZM6re5-Hw5Yo5qASl4U,8391
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  linkml/validators/sparqlvalidator.py,sha256=xlf9hZ-XDeScv2WB9wBg17WKM8HOKmRPowozOzlOLSQ,4961
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  linkml/workspaces/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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  linkml/workspaces/datamodel/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
155
- linkml/workspaces/datamodel/workspaces.py,sha256=4HdkqweGNfMPqnB1_Onc9DcTfkhoagTRcqruh08nRoI,14905
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  linkml/workspaces/datamodel/workspaces.yaml,sha256=EjVrwPpeRZqJRjuGyyDRxxFzuv55SiLIXPBRUG6HStU,4233
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- linkml/workspaces/example_runner.py,sha256=oViQ5gT8NkFTZbg0dW5LAOSAOAfJK8_QmKdYwzzGhgQ,12919
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- linkml-1.9.0rc1.dist-info/LICENSE,sha256=kORMoywK6j9_iy0UvLR-a80P1Rvc9AOM4gsKlUNZABg,535
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- linkml-1.9.0rc1.dist-info/RECORD,,
157
+ linkml/workspaces/example_runner.py,sha256=EjaAn6vaAKZnFcW5hRopkYBguiaR05aqKbuaM-o_7IE,12940
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+ linkml-1.9.1.dist-info/LICENSE,sha256=kORMoywK6j9_iy0UvLR-a80P1Rvc9AOM4gsKlUNZABg,535
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+ linkml-1.9.1.dist-info/METADATA,sha256=EUF4U1WeKC4zHVJKAM489dDQtGaR_itKYDkUe7EzrBM,3712
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+ linkml-1.9.1.dist-info/RECORD,,
@@ -1,4 +1,4 @@
1
1
  Wheel-Version: 1.0
2
- Generator: poetry-core 1.4.0
2
+ Generator: poetry-core 1.9.1
3
3
  Root-Is-Purelib: true
4
4
  Tag: py3-none-any