linkml 1.9.3rc1__py3-none-any.whl → 1.9.3rc2__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 (60) hide show
  1. linkml/generators/PythonGenNotes.md +49 -49
  2. linkml/generators/README.md +2 -2
  3. linkml/generators/dbmlgen.py +0 -1
  4. linkml/generators/docgen/class.md.jinja2 +35 -11
  5. linkml/generators/docgen/class_diagram.md.jinja2 +15 -15
  6. linkml/generators/docgen/common_metadata.md.jinja2 +3 -5
  7. linkml/generators/docgen/enum.md.jinja2 +4 -5
  8. linkml/generators/docgen/index.md.jinja2 +5 -5
  9. linkml/generators/docgen/index.tex.jinja2 +1 -1
  10. linkml/generators/docgen/schema.md.jinja2 +1 -3
  11. linkml/generators/docgen/slot.md.jinja2 +6 -8
  12. linkml/generators/docgen/subset.md.jinja2 +4 -7
  13. linkml/generators/docgen/type.md.jinja2 +2 -3
  14. linkml/generators/docgen.py +92 -4
  15. linkml/generators/erdiagramgen.py +1 -1
  16. linkml/generators/graphqlgen.py +1 -1
  17. linkml/generators/javagen/example_template.java.jinja2 +0 -1
  18. linkml/generators/jsonldcontextgen.py +0 -1
  19. linkml/generators/jsonldgen.py +3 -1
  20. linkml/generators/jsonschemagen.py +2 -2
  21. linkml/generators/linkmlgen.py +1 -1
  22. linkml/generators/markdowngen.py +20 -9
  23. linkml/generators/mermaidclassdiagramgen.py +4 -0
  24. linkml/generators/projectgen.py +17 -20
  25. linkml/generators/pydanticgen/includes.py +5 -5
  26. linkml/generators/pydanticgen/pydanticgen.py +1 -2
  27. linkml/generators/pydanticgen/template.py +1 -1
  28. linkml/generators/pydanticgen/templates/base_model.py.jinja +1 -1
  29. linkml/generators/pydanticgen/templates/class.py.jinja +1 -1
  30. linkml/generators/pydanticgen/templates/conditional_import.py.jinja +1 -1
  31. linkml/generators/pydanticgen/templates/footer.py.jinja +1 -1
  32. linkml/generators/pydanticgen/templates/imports.py.jinja +1 -1
  33. linkml/generators/python/python_ifabsent_processor.py +1 -1
  34. linkml/generators/pythongen.py +9 -8
  35. linkml/generators/shacl/shacl_ifabsent_processor.py +0 -1
  36. linkml/generators/shaclgen.py +1 -1
  37. linkml/generators/sparqlgen.py +1 -1
  38. linkml/generators/sqlalchemy/__init__.py +0 -4
  39. linkml/generators/sqlalchemygen.py +9 -15
  40. linkml/generators/sqltablegen.py +70 -4
  41. linkml/generators/string_template.md +3 -4
  42. linkml/generators/terminusdbgen.py +1 -2
  43. linkml/linter/cli.py +3 -4
  44. linkml/linter/config/datamodel/config.py +286 -135
  45. linkml/linter/config/datamodel/config.yaml +26 -11
  46. linkml/linter/config/default.yaml +6 -0
  47. linkml/linter/config/recommended.yaml +6 -0
  48. linkml/linter/linter.py +10 -6
  49. linkml/linter/rules.py +144 -46
  50. linkml/transformers/relmodel_transformer.py +2 -1
  51. linkml/utils/generator.py +3 -0
  52. linkml/utils/logictools.py +5 -5
  53. linkml/utils/schemaloader.py +4 -4
  54. linkml/utils/schemasynopsis.py +11 -7
  55. linkml/workspaces/datamodel/workspaces.yaml +0 -5
  56. {linkml-1.9.3rc1.dist-info → linkml-1.9.3rc2.dist-info}/LICENSE +1 -1
  57. {linkml-1.9.3rc1.dist-info → linkml-1.9.3rc2.dist-info}/METADATA +1 -1
  58. {linkml-1.9.3rc1.dist-info → linkml-1.9.3rc2.dist-info}/RECORD +60 -60
  59. {linkml-1.9.3rc1.dist-info → linkml-1.9.3rc2.dist-info}/WHEEL +0 -0
  60. {linkml-1.9.3rc1.dist-info → linkml-1.9.3rc2.dist-info}/entry_points.txt +0 -0
@@ -3,8 +3,8 @@ linkml/_version.py,sha256=udxv6OEqcE89DTVMYPtetXYg8IA8Sgc6yW26-6f8C3M,310
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  linkml/cli/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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  linkml/cli/__main__.py,sha256=oPa7Fl2DQP40UivpIWNRr1CgwT2SQM0rhE478155zBY,80
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  linkml/cli/main.py,sha256=EncEEYMqaSlXj3pOEi8_xqZe12BYPW9IdEMJilGqIkI,5594
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- linkml/generators/PythonGenNotes.md,sha256=wb9BPLLhF6378OKLbwSBAwmniLpwrcT5_bbfCHfLme8,51006
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- linkml/generators/README.md,sha256=RMzT8EblC_GEdPy5WyfXHDBXlFI6k6mz3Cx2sdpcyWI,4438
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+ linkml/generators/PythonGenNotes.md,sha256=SOzZhIBP_O8g46uBTnYy6A7nuP--hh-f_QXEERZRxdk,50822
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+ linkml/generators/README.md,sha256=fnkmT98lspv8a8FyBLOQsHoBKQaapFGb8H_Stg56dco,4436
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  linkml/generators/__init__.py,sha256=AxTltouJeNayg3sJmVM7h4JkCx8NxGa4AV-_awtvfmo,1669
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  linkml/generators/common/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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  linkml/generators/common/build.py,sha256=X2QDnybdr5GwDIaXWfwAzIqduqk7_rDReU-7CvcJ2OI,2835
@@ -14,34 +14,34 @@ linkml/generators/common/naming.py,sha256=KkY3KCTX3DM30VbPjfIS6icEc-IxUNF9hE8GXr
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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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- linkml/generators/docgen/class.md.jinja2,sha256=LqQSKfH-wWR1ELTbhuEK5QFypU__uqwLmbGvS9rZsKo,3602
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- linkml/generators/docgen/class_diagram.md.jinja2,sha256=hCBPUyhvZWFow5eWVyzCtZ-_nMbq5fHFLxz7d6hpdNI,3633
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- linkml/generators/docgen/common_metadata.md.jinja2,sha256=Gj2JltvwCvVHBloYkXFtudFsu407pibfgmKRw4NFY4k,1603
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- linkml/generators/docgen/enum.md.jinja2,sha256=BCi4PUamCjszM17yrg2KNltR_JfrBjNdH87S5uz9DtY,1112
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- linkml/generators/docgen/index.md.jinja2,sha256=jP_sx7b96bf1WDmtsS7XtdsNoRuHrOI2Wbl8VE223pQ,1512
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- linkml/generators/docgen/index.tex.jinja2,sha256=Go_EA-_N4JUpbOYbk3OY11mz5yV70VF2l2sMtgIPWw4,501
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- linkml/generators/docgen/schema.md.jinja2,sha256=b52xmnlTheigxKgP_2Sq1nnQUEW6XNi_ScPnqxptjps,167
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- linkml/generators/docgen/slot.md.jinja2,sha256=_0xgRUlSYJMpxwGcboFoCAcELFDEzzXSTwBduPvwY-Q,3501
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- linkml/generators/docgen/subset.md.jinja2,sha256=ttcsDa2fLYOU1_tDzHOyEsplhc1UHY_cy1_apQZyk6A,2803
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- linkml/generators/docgen/type.md.jinja2,sha256=K0f7x5b3Nfjm1W-rDI4OHj2sU-RNm9hP1nuRJjHHJMU,733
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- linkml/generators/docgen.py,sha256=bAgiOPqRy8We-zhbCq5EQqbQkScNFZBvg_jk5JINyMw,39919
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+ linkml/generators/dbmlgen.py,sha256=6TvpdvTEPoprdBHuJpbfIb1Ejwpp20kGNUvW5Av7cpo,5465
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+ linkml/generators/docgen/class.md.jinja2,sha256=2QI-9DpqZ9XJc-g2RwiBa2EkWeDeg4j4HH5cxgE_A3w,4336
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+ linkml/generators/docgen/class_diagram.md.jinja2,sha256=UCpMYgzbcRsXpb7TnUsCUqIu0yWCEOvPB6o7IOvZFuA,3728
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+ linkml/generators/docgen/common_metadata.md.jinja2,sha256=SojKaesnnpnyIIc4uK5NWZJ-IOgHVSHY4q8ybowF5rE,1607
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+ linkml/generators/docgen/enum.md.jinja2,sha256=WmKrDAPqO-jMfZf3d2d4mX7K9AcxO8ISDo3vCFBn_bo,1130
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+ linkml/generators/docgen/index.md.jinja2,sha256=tMjfyDa_ryem7x4gAYGEdo_jLcZf5fKAoWb0zEnErtU,1532
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+ linkml/generators/docgen/index.tex.jinja2,sha256=JDMwtc5UHParKN_w9wpz2dXIMBiOYC4D2KrhQE9YDUo,503
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+ linkml/generators/docgen/schema.md.jinja2,sha256=3hbrhdv2oDqekPBP4I4xz3vS4igsqOVl7gUlpOZE2FA,172
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+ linkml/generators/docgen/slot.md.jinja2,sha256=ZJZrofpPy6U0CltTHIW6MffV48CJVyQqHkfjLdTtZl0,3516
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+ linkml/generators/docgen/subset.md.jinja2,sha256=KrLBUyFA_m3G9EHGy1CUFkglaL0EwgURlKQCu0CkVJM,2817
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+ linkml/generators/docgen/type.md.jinja2,sha256=126SvOOXG4sYLKZvgIPNdHRPsM3fePpbMgfNICpvpKk,741
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+ linkml/generators/docgen.py,sha256=UZYm3IRhkNtj2NyxVhsb2Q12P6pC3TqRpt0SJiaGjmU,43363
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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/erdiagramgen.py,sha256=hiF933DGY3GD2A-xu0LtivTH96iolUcZYcEewFyQ08Y,11451
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  linkml/generators/golanggen.py,sha256=oBXY0gUz2OzI8uKjubUT9WeBJ4TdoOYUqXxNqeEG1gM,5834
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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/graphqlgen.py,sha256=34qGKjNqz6jJg4b6ClGAA1ffOscSPpeemM3IkifDuRg,3485
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+ linkml/generators/javagen/example_template.java.jinja2,sha256=r9vyzZxIMRKI55Js790G-sxmbMIaOekp46eEWM9FLDk,443
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- linkml/generators/jsonldcontextgen.py,sha256=3bu4OY4t5eyiCghXJZ1m9mGPrLpHcJ2ap21Cov_IWpM,8947
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- linkml/generators/jsonldgen.py,sha256=titjvZz7pMozT0kR1UJh4H57RTPBKKYQ35t0g5Ofj_Q,7794
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- linkml/generators/jsonschemagen.py,sha256=F2lJCS-8cSYRgljh-6OM395aCeL2Fb3Qx6gB2X2mXXw,30848
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+ linkml/generators/jsonldcontextgen.py,sha256=opDZ0q_rc-E8yKeieWZbrMk-np8fheyMVB5jnxmMOz4,8946
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+ linkml/generators/jsonldgen.py,sha256=pHSCmZ_qKdzVot_J8XFhPAyYOUYap7Vt6NGigM0-SQ0,7842
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+ linkml/generators/jsonschemagen.py,sha256=gVfeEzz9izxI231oA48pDc4vTP7rvUUkySmw2T8PNoo,30887
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- linkml/generators/linkmlgen.py,sha256=xYgS4i-Xo5Z3t9gqEdqxHKv5KGUxOerpy8M9kX6WeuI,4225
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- linkml/generators/markdowngen.py,sha256=23fYWzVfufbzQxrRLKvYLEDDlBBKqVfJCguelIiW2Fs,35214
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- linkml/generators/mermaidclassdiagramgen.py,sha256=yllg4l8psxdeti1kYOgiseB0fGeFQK_4FAealjFZ5bE,5011
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+ linkml/generators/linkmlgen.py,sha256=j8T7O-_i7JAa87EnHgSqmdeD4RsXOD66MqZU7P-tX2c,4221
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+ linkml/generators/markdowngen.py,sha256=_4RfmuMNR-m90QdmbG26iFQC_ZSaUBDUWPX_hsqZPLY,35530
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+ linkml/generators/mermaidclassdiagramgen.py,sha256=9HEcXntK0lL4T2wYpKzeFyTg6rRUt1ZiOVdZgA_l4eg,5145
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@@ -58,68 +58,68 @@ linkml/generators/panderagen/panderagen_class_based/slots.jinja2,sha256=cy8LKkGN
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- linkml/generators/projectgen.py,sha256=vPaCv8Qf3rwi2aPlEpFc2-Q27ed9WwZiJfseZvflIXU,9764
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+ linkml/generators/projectgen.py,sha256=jo2sMAIES1UG1l_auPACsL81aaTPU9obrGHGGMAFqEM,9590
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- linkml/generators/pydanticgen/includes.py,sha256=UaMYaO8hKE7oV14mXr2xJK72bmYlJLO_Rh7QWDgKy3I,504
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- linkml/generators/pydanticgen/pydanticgen.py,sha256=QWX4PIrlpnpwuEpp6cFv9_FaeKlri6F4m7qn8r_UbUM,49800
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- linkml/generators/pydanticgen/template.py,sha256=Cq9jAi8P-MXOfM3Azt1uZPxSJbvqVI8GfWA62rDpZMo,24839
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+ linkml/generators/pydanticgen/includes.py,sha256=qwC8Lj2enFMLLNbaOlZINra0WSQuI4WS9Bd_ZvgQe1c,476
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+ linkml/generators/pydanticgen/pydanticgen.py,sha256=tTgegnBae0Y_QfV1BnbRoUw-h5TPdcw_pJImWkF521w,49780
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+ linkml/generators/pydanticgen/template.py,sha256=QKDjsP3XosdkckMx_lDx7UZsIeIvgk4RdO7wJnDQVG4,24836
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- linkml/generators/pydanticgen/templates/conditional_import.py.jinja,sha256=YheknDrxvepiJUzeItSL5aSbAkCdR1k0a6m6aTA4qNM,240
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+ linkml/generators/pydanticgen/templates/base_model.py.jinja,sha256=4wrDfZppqLQqs9NKW0NW_5Q9wJiDOT-P2UKU_d8U07s,407
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+ linkml/generators/pydanticgen/templates/class.py.jinja,sha256=PCkbfRcONxk4ScVHKiGK-6KPjzS94QCKCn262LZ6O_8,691
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+ linkml/generators/pydanticgen/templates/conditional_import.py.jinja,sha256=r2kb-AOJgqUgU98_tqk2aB4BG1bJFcfV1Ts7TaHTGds,241
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+ linkml/generators/pydanticgen/templates/footer.py.jinja,sha256=k764ffh6q-qDJYpTtiUGePOrcw6i81Osrm8mRWs_c2c,156
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- linkml/generators/pythongen.py,sha256=LDYQxtl4PEDmzX4e9mR9DQ2X9ANcE3vIOI4JMwnl8R8,55769
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+ linkml/generators/python/python_ifabsent_processor.py,sha256=AqFabuyHCBpPTLO2-XO1uWNh3YcIpc-Na_649o_VmLc,3834
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+ linkml/generators/pythongen.py,sha256=soc3EgUpp1dYwRWx--aVGWo9emCNhj9TvcJsUNunlwE,55847
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- linkml/generators/shacl/shacl_ifabsent_processor.py,sha256=usmqdCvAPiivHzXWkNzW0G_KOaAG8bHdTCkEH2pI0b4,4364
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- linkml/generators/shaclgen.py,sha256=pidElJptVQVTlsbOrZoClNx77FNzTSnTCNJzBJaXD7k,15277
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+ linkml/generators/shacl/shacl_ifabsent_processor.py,sha256=rjxD5OSa7s66ALSj_8CqAqU8oj2NiE4nfOQJ6xCSpjA,4363
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+ linkml/generators/shaclgen.py,sha256=qas_rqhwx7IpnIKAKOtxUTPB7EdhiCcTOLVJQbLOOsk,15277
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- linkml/generators/terminusdbgen.py,sha256=om2pHIIMmL2mh3DkzCO_J20ni7qr43L4ptl3jqSsZN4,4689
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+ linkml/linter/config/datamodel/config.py,sha256=nU9-BMqWcdSaJrMMX7pauljPyGNo9yGRHP2kiUxXO6E,22971
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+ linkml/linter/config/datamodel/config.yaml,sha256=oJzH3H_N9OzqFwr-ThPEvs0OQI82E07rEAM5dm_7Ndw,9741
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+ linkml/linter/config/default.yaml,sha256=sDKkS9RXhSy7U6YCr5bbzPpCYCvChy6c9PsRd49tJRc,730
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+ linkml/linter/config/recommended.yaml,sha256=iPvaevOWgNge0ECAQoXE1v78lY_te7i9nyE-xr7pqdc,316
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- linkml/linter/linter.py,sha256=GRg_sQ8X1OaYiUsdNvMKCcKHW_GlgKIxJb0Rdc_-KLU,5166
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- linkml/linter/rules.py,sha256=tehqq9pFg5AN2qCAkGZJgJMp1ByutcCL9rQxwk-mlbI,12629
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+ linkml/linter/linter.py,sha256=O7X2i6w-YWKl26FL7WXw9Beh4xkhmYi30PuD_FE3cM8,5187
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+ linkml/linter/rules.py,sha256=uzUcFdHAfkm1Pd-WSMJFuIYQI7LlzV-E-vSHgc5zvEo,16912
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- linkml/transformers/relmodel_transformer.py,sha256=9_r4bNJ6HDjaqZZTOE6nmjXjLgmRm-i96NbgBma8iR4,19663
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+ linkml/transformers/relmodel_transformer.py,sha256=g3WhT3FyNlxP36lFaJzSh9v9eZweNKRgBT8j9JDgxSc,19695
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@@ -130,15 +130,15 @@ linkml/utils/datavalidator.py,sha256=kBdWaVi8IZT1bOwEJgJYx-wZAb_PTBObB9nHpYORfKA
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- linkml/utils/generator.py,sha256=TWif2M7LHv6pAW5uRHJKBzNmEkasAen1W3uMjO1VPIA,39576
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+ linkml/utils/generator.py,sha256=WIiH1VzmDKMl438u9gBYMDRXRawsBKylVL3TyrMiZ78,39693
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- linkml/utils/logictools.py,sha256=pV66YWCWhQyCjra77k2H_hygaIq3Dy6vAb9N67rrAdc,23649
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+ linkml/utils/logictools.py,sha256=dvwuX6DU0PZyxhVr9kphyQFttqZNSbbIRZ7vtTh2gU8,23649
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- linkml/utils/schemaloader.py,sha256=Pf4SVtFArBj96XCml9HdkpYmFo-D5c8bw4PfykzzcZw,47395
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- linkml/utils/schemasynopsis.py,sha256=nhsvzgxV6WPvrMeQuPJHfoSLMv5LrqEt2q6-ORdFEpA,18397
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+ linkml/utils/schemaloader.py,sha256=jc4IL03DSCt2V-POiarUKSh0U8jDzMrrxmXvcwbanIQ,47387
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+ linkml/utils/schemasynopsis.py,sha256=0cJZHTIrXTUS6EPvK2YKo7IuvbRQCkWKeRBsyz_zjSo,18441
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@@ -165,10 +165,10 @@ linkml/validators/sparqlvalidator.py,sha256=xlf9hZ-XDeScv2WB9wBg17WKM8HOKmRPowoz
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- linkml/workspaces/datamodel/workspaces.yaml,sha256=EjVrwPpeRZqJRjuGyyDRxxFzuv55SiLIXPBRUG6HStU,4233
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+ linkml/workspaces/datamodel/workspaces.yaml,sha256=LU0lMJ4W6Tk66r5ECD7OkaVm9kCRfu93yoik1b4gkzQ,4228
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- linkml-1.9.3rc1.dist-info/LICENSE,sha256=kORMoywK6j9_iy0UvLR-a80P1Rvc9AOM4gsKlUNZABg,535
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- linkml-1.9.3rc1.dist-info/METADATA,sha256=lGReTCYP9hgSXPJO-A_9jO90q8eiuxUh690TYBuO9wk,3723
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- linkml-1.9.3rc1.dist-info/WHEEL,sha256=b4K_helf-jlQoXBBETfwnf4B04YC67LOev0jo4fX5m8,88
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- linkml-1.9.3rc1.dist-info/entry_points.txt,sha256=AgYAJBnCIEYZsOidFnZKRbTJRxMRtmapbXbtx5imB0E,2239
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- linkml-1.9.3rc1.dist-info/RECORD,,
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+ linkml-1.9.3rc2.dist-info/LICENSE,sha256=zsURghk1UIVsx0jaDvEy5QU2UAqecv1vtJozTV8Hwvw,536
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+ linkml-1.9.3rc2.dist-info/METADATA,sha256=29VpSkHtXf1hL7ETI3YbuuOcpelavTQ0E9rSKMofyvQ,3723
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+ linkml-1.9.3rc2.dist-info/WHEEL,sha256=b4K_helf-jlQoXBBETfwnf4B04YC67LOev0jo4fX5m8,88
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+ linkml-1.9.3rc2.dist-info/entry_points.txt,sha256=AgYAJBnCIEYZsOidFnZKRbTJRxMRtmapbXbtx5imB0E,2239
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+ linkml-1.9.3rc2.dist-info/RECORD,,