linkml 1.8.3__py3-none-any.whl → 1.8.5__py3-none-any.whl

linkml/validator/plugins/pydantic_validation_plugin.py

@@ -37,7 +37,7 @@ class PydanticValidationPlugin(ValidationPlugin):
         """
         pydantic_model = context.pydantic_model(closed=self.closed)
         try:
-            instance = pydantic_model.parse_obj(instance)
+            instance = pydantic_model.model_validate(instance)
         except Exception as e:
             yield ValidationResult(
                 type="Pydantic validation",

linkml/validators/jsonschemavalidator.py

@@ -19,6 +19,8 @@ from linkml.generators.pythongen import PythonGenerator
 from linkml.utils import datautils
 from linkml.utils.datavalidator import DataValidator
 
+logger = logging.getLogger(__name__)
+
 
 class HashableSchemaDefinition(SchemaDefinition):
     def __hash__(self) -> int:
@@ -27,7 +29,7 @@ class HashableSchemaDefinition(SchemaDefinition):
 
 @lru_cache(maxsize=None)
 def _generate_jsonschema(schema, top_class, closed, include_range_class_descendants):
-    logging.debug("Generating JSON Schema")
+    logger.debug("Generating JSON Schema")
     not_closed = not closed
     return JsonSchemaGenerator(
         schema=schema,

linkml/validators/sparqlvalidator.py

@@ -15,6 +15,8 @@ from linkml.reporting import CheckResult, Report
 from linkml.utils.datautils import _get_format, dumpers_loaders, get_dumper
 from linkml.utils.datavalidator import DataValidator
 
+logger = logging.getLogger(__name__)
+
 
 def sparqljson2dict(row: dict):
     return {k: v["value"] for k, v in row.items()}
@@ -55,7 +57,7 @@ class SparqlDataValidator(DataValidator):
                 for row in qres:
                     invalid += row
             except Exception:
-                logging.error(f"FAILED: {qn}")
+                logger.error(f"FAILED: {qn}")
         return invalid
 
     def validate_endpoint(self, url: str, **kwargs):
@@ -65,8 +67,8 @@ class SparqlDataValidator(DataValidator):
         report = Report()
         for qn, q in self.queries.items():
             q += " LIMIT 20"
-            logging.debug(f"QUERY: {qn}")
-            logging.debug(f"{q}")
+            logger.debug(f"QUERY: {qn}")
+            logger.debug(f"{q}")
             sw = SPARQLWrapper(url)
             sw.setQuery(q)
             sw.setReturnFormat(JSON)

linkml/workspaces/example_runner.py

@@ -24,6 +24,8 @@ from linkml._version import __version__
 from linkml.generators.pythongen import PythonGenerator
 from linkml.validator import Validator, _get_default_validator
 
+logger = logging.getLogger(__name__)
+
 
 @dataclass
 class SummaryDocument:
@@ -134,7 +136,7 @@ class ExampleRunner:
             input_examples = glob.glob(os.path.join(str(input_dir), f"*.{fmt}"))
             input_counter_examples = glob.glob(os.path.join(str(counter_example_dir), f"*.{fmt}"))
             if not input_counter_examples:
-                logging.warning(f"No counter examples found in {self.counter_example_input_directory}")
+                logger.warning(f"No counter examples found in {self.counter_example_input_directory}")
             self.process_examples_from_list(input_examples, fmt, False)
             self.process_examples_from_list(input_counter_examples, fmt, True)
 

{linkml-1.8.3.dist-info → linkml-1.8.5.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: linkml
-Version: 1.8.3
+Version: 1.8.5
 Summary: Linked Open Data Modeling Language
 Home-page: https://linkml.io/linkml/
 Keywords: schema,linked data,data modeling,rdf,owl,biolink
@@ -24,6 +24,7 @@ Classifier: Programming Language :: Python :: 3.8
 Classifier: Programming Language :: Python :: 3.9
 Classifier: Topic :: Software Development :: Libraries :: Python Modules
 Provides-Extra: black
+Provides-Extra: numpydantic
 Provides-Extra: shacl
 Provides-Extra: tests
 Requires-Dist: antlr4-python3-runtime (>=4.9.0,<4.10)
@@ -37,6 +38,7 @@ Requires-Dist: jsonasobj2 (>=1.0.3,<2.0.0)
 Requires-Dist: jsonschema[format] (>=4.0.0)
 Requires-Dist: linkml-dataops
 Requires-Dist: linkml-runtime (>=1.8.1,<2.0.0)
+Requires-Dist: numpydantic (>=1.6.1) ; (python_version >= "3.9") and (extra == "numpydantic" or extra == "tests")
 Requires-Dist: openpyxl
 Requires-Dist: parse
 Requires-Dist: prefixcommons (>=0.1.7)

{linkml-1.8.3.dist-info → linkml-1.8.5.dist-info}/RECORD

@@ -5,11 +5,12 @@ linkml/cli/__main__.py,sha256=oPa7Fl2DQP40UivpIWNRr1CgwT2SQM0rhE478155zBY,80
 linkml/cli/main.py,sha256=83lyx36tcy95StDRtN7BmwNFCPt4As1wb0wbC3YwHKg,5386
 linkml/generators/PythonGenNotes.md,sha256=wb9BPLLhF6378OKLbwSBAwmniLpwrcT5_bbfCHfLme8,51006
 linkml/generators/README.md,sha256=RMzT8EblC_GEdPy5WyfXHDBXlFI6k6mz3Cx2sdpcyWI,4438
-linkml/generators/__init__.py,sha256=dQ2EUKy_MctEVEzbC3XzEJL5YmYwjYfsa44mG2zKn7g,1517
+linkml/generators/__init__.py,sha256=2qSOnibL6KtzBW3KNqVX1gx1LQttrXlOPbbVDLLV2go,1587
 linkml/generators/common/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 linkml/generators/common/build.py,sha256=hXf2gf1ox2hiR-D6N-qXt5w5QkISLlo1A-_GurY3yHo,2897
-linkml/generators/common/ifabsent_processor.py,sha256=D8vKZLa15mc_SUyvFsE3NZfWi-c4kawYW6WdGozJLRQ,11275
+linkml/generators/common/ifabsent_processor.py,sha256=hVm6mKq8qciL5Fa53TAtGO8ZJnbRuktvJnaA6-HutTk,13533
 linkml/generators/common/lifecycle.py,sha256=UOJXlIyWQkvsn0Dao9_ZDzlamJtiINyVJQ6SRj66L9s,4910
+linkml/generators/common/naming.py,sha256=AsLJ7e87TU_SnAM0Sy7q9HZc-qXvyIuqHt1CoHV-Y3Y,5089
 linkml/generators/common/template.py,sha256=bjcSNiC85MYl9oGhk0ZpqwZpRxxy_NqxG8XBV-TXXDY,3338
 linkml/generators/common/type_designators.py,sha256=lgVcIRJJ-yCvVGeP9U_gQZpm77UmJBQo9Bh3lGJITno,1956
 linkml/generators/csvgen.py,sha256=O20K3IuDxomGJAyNFJmm1_HbPyl6xUK0l-aKY0A3KcM,3253
@@ -17,71 +18,71 @@ linkml/generators/docgen/class.md.jinja2,sha256=-JmjYHgYOaaBYd5r-Tr5dkk0CLM_lX0k
 linkml/generators/docgen/class_diagram.md.jinja2,sha256=gzskx4hOpU_s6BqOXdYZ9DwKxuClnsEgDzPurm30PeY,3469
 linkml/generators/docgen/common_metadata.md.jinja2,sha256=gy9J8rghBfKDKimwtHj_XuHY4PJRRYHLXVlBHqWrUzU,1604
 linkml/generators/docgen/enum.md.jinja2,sha256=mXnUrRkleY2bOTEyAZ5c4pcUnqhs6BNa8a-4LVve-eo,1014
-linkml/generators/docgen/index.md.jinja2,sha256=wXUYTmayPLFltC0vbGE_Mf6m3GkkWav7FOEjCvEpHp4,1466
+linkml/generators/docgen/index.md.jinja2,sha256=suXRgJydHrxcMm3quXukaKkThtdzYA9i7BTuMAVKOP0,1502
 linkml/generators/docgen/index.tex.jinja2,sha256=Go_EA-_N4JUpbOYbk3OY11mz5yV70VF2l2sMtgIPWw4,501
 linkml/generators/docgen/schema.md.jinja2,sha256=xlENfnzNRYgPT_0tdqNFxgklVM4Qf5BuzhFVvSMDuxs,70
 linkml/generators/docgen/slot.md.jinja2,sha256=dJHugIv9OPTi3FIn8Iez7CzjQizdXrcn0hcmCmXSgV4,3339
 linkml/generators/docgen/subset.md.jinja2,sha256=EPln_fjlhlkmwEGEp2iPX-9Xm2vVodPZLlRBlYCB_sA,2705
 linkml/generators/docgen/type.md.jinja2,sha256=QmCMJZrFwP33eHkggBVtypbyrxTb-XZn9vHOYojVaYk,635
-linkml/generators/docgen.py,sha256=BbYIL1Bep0La4izwHaYZuTsnbVAv8_zjx3U3r1eHFEQ,36406
+linkml/generators/docgen.py,sha256=iDSu2LsZ7MStrzXdxFwK-oBlVevq2MwBc1n5WzHzTyw,38996
 linkml/generators/dotgen.py,sha256=vjHveFtKBItHRkowi1I4FHffcn4u4wLpBydYgVxB-vE,5028
 linkml/generators/erdiagramgen.py,sha256=5_VEPvRL0I819wCjk7T5hWffdBPc_qw3XpQdOYpO7uE,11357
 linkml/generators/excelgen.py,sha256=MQRRm1wDbg7auUQH9tGb5aRyrp-e4gjXsY10aoLb9LI,7708
-linkml/generators/golanggen.py,sha256=w3iTcOK69cwCrhE1pZn-PpV59arFZB8uU3ErLFo9i8Y,5803
+linkml/generators/golanggen.py,sha256=Qx1GZRIrKn8jNoO-8fJMjkrwV9ZLwR4NwYBW5kGGp9c,5840
 linkml/generators/golrgen.py,sha256=JB92VDhTuwyaOyxHxB4goIsjZbq4NMf36ESprC3GeBs,3454
-linkml/generators/graphqlgen.py,sha256=-BS-UHPyHqauUgtgcFCO4xSxxogk7BPAQFSXHIrKJT0,2163
+linkml/generators/graphqlgen.py,sha256=belU4f89vBHoHBipaMkHiE_ND42IV7L0Zp4akL9sQWk,3484
 linkml/generators/javagen/example_template.java.jinja2,sha256=ec4CVTv_0zS7V5Y-1E6H4lRraya10gfX7BEMBlu38X4,444
 linkml/generators/javagen/java_record_template.jinja2,sha256=OQZffLSy_xR3FIhQMltvrYyVeut7l2Q-tzK7AOiVmWs,1729
 linkml/generators/javagen.py,sha256=BTAXgvOOvRa3AOfaaiVFyuyaqg4XFR_JbO6_7tT_AnQ,5335
 linkml/generators/jsonldcontextgen.py,sha256=J-9QF7doco3-hYReiik67PjiaF_UudrFEiVsbnJFCJg,8666
 linkml/generators/jsonldgen.py,sha256=9ru1rb4_u7t_Rp8ILQSmDIsk_evrDL_OeilnQUsu338,7770
-linkml/generators/jsonschemagen.py,sha256=XoA0HJ1XlItogmhr3F8XNnAi1UG6fXeBAKkjme48n7o,30388
+linkml/generators/jsonschemagen.py,sha256=1k00W4I4paKHKZnmcWcMEoAel1VZRHa2rVgcOZW3kZU,30424
 linkml/generators/legacy/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 linkml/generators/linkmlgen.py,sha256=g1D8B6MBxcG6b9aYCUESp7nDZPmjedCs8rmGm_0GLnE,3484
 linkml/generators/markdowngen.py,sha256=0gjMPJ0Ycm9se4Y4cyqjbTntGYqRRZu4RL-9Qf5n4lk,34464
 linkml/generators/namespacegen.py,sha256=C4p9LSwsnDqf6sv-wG5l0VQniWFJ1HA1hRXJBDOg3pM,6467
 linkml/generators/oocodegen.py,sha256=aBJgy-S-8FL5cW9p4hf986iSTxXwvkM7ZajKlari4us,7820
-linkml/generators/owlgen.py,sha256=XgEuwvlznnsk8Z-mqZlCC0eK2DinPT9YLga3CkRyBRE,57564
+linkml/generators/owlgen.py,sha256=X00YGlx8scBftKY422l6uwnvqiQpNd2DI4cDC-G0kW8,58204
 linkml/generators/plantumlgen.py,sha256=ScTpXZe2Vjs2O6DeRJo-nr-p13lWSAtMZl6gu9jQYTk,15478
 linkml/generators/prefixmapgen.py,sha256=oISFtSt_s5OWx65tYasWk0bUJIDIU1MjnsWqfBE7ZQA,4257
-linkml/generators/projectgen.py,sha256=XSndKhTJ8uik30wWtabKNhERybPeeyVrekf7oEDVF2Q,9764
+linkml/generators/projectgen.py,sha256=XQdOjAJroroT2JNNPbrUauv2DTJ3tfJoFNYGSLKky24,9791
 linkml/generators/protogen.py,sha256=a4KUyKj525tuE2YenEJQ_IkbNKnnhVH_N-qTEmMBVY4,2524
 linkml/generators/pydanticgen/__init__.py,sha256=5SUFNcrh-6MLfMqptR6wPsR2v1Gyrl3wii-yu6kdnQM,700
-linkml/generators/pydanticgen/array.py,sha256=mF_vhmlPfd9yVlVyANvT9GgLP6iQLSheqaowT5Jp6Jo,16120
+linkml/generators/pydanticgen/array.py,sha256=eV5zWd4dJl7Uj-xQyijibACily4IgWSEQRH8Wmga9gc,27876
 linkml/generators/pydanticgen/black.py,sha256=BaJ7b-kMUbIN_cKRT3yCaMEbFwxzj1_U7w4fKQnkL44,723
-linkml/generators/pydanticgen/build.py,sha256=_NQzXK_wWJ-EAHBi1nqZCEWSTYy7KWkc5w-mRsEXycI,3936
+linkml/generators/pydanticgen/build.py,sha256=xWNnxaNz0LqfNpgUuaUeVdvmXyFASwv5QED3bEaUVaM,4093
 linkml/generators/pydanticgen/includes.py,sha256=kDAwonKbhTFzrFa2TrmTYuOSHXuzDy5WHgBaI5nVY6c,504
-linkml/generators/pydanticgen/pydanticgen.py,sha256=GpGROIR1CX876NIvVoW9dlGe1r_vQSnojC7qnM9RNrM,49239
-linkml/generators/pydanticgen/template.py,sha256=alt5yXyf2zdh93rLhyuIu9Ctb9C3O1oM62Upr4JH6Cw,21000
+linkml/generators/pydanticgen/pydanticgen.py,sha256=IEmSPr9zu1dkgIMFvVKDswokhQvM_weXdmVNQ3l3eNQ,49938
+linkml/generators/pydanticgen/template.py,sha256=wjUMiTay_EFh8zp5LfytBsgZJGlKjV96PVnBgI21KVc,24886
 linkml/generators/pydanticgen/templates/attribute.py.jinja,sha256=uMyVKpO5uQkAFlIvIBwA6FFZl_BSIotfwCorrSwMA3Q,873
 linkml/generators/pydanticgen/templates/base_model.py.jinja,sha256=6KRQ1ZVHh1uwZnYL3qxBnyit8_DNE7D-4l2-1wsRsG0,406
 linkml/generators/pydanticgen/templates/class.py.jinja,sha256=GqR2t5y0vLmvUpT2vyP5VX42PO9AkAnGE-U2RZPa9AI,690
 linkml/generators/pydanticgen/templates/conditional_import.py.jinja,sha256=YheknDrxvepiJUzeItSL5aSbAkCdR1k0a6m6aTA4qNM,240
 linkml/generators/pydanticgen/templates/enum.py.jinja,sha256=572XFQyEMZfL-G_Cj68T-NI_mUnDoFOAVJOGIKu2Hb8,338
 linkml/generators/pydanticgen/templates/footer.py.jinja,sha256=t_24p1xmqdbfxGqz_XCXSTvkkWt26_2w_RcQjGIAWlY,155
-linkml/generators/pydanticgen/templates/imports.py.jinja,sha256=d1XFna2eOpkH8cgJML3vXwqGcocczvOcrbg6jjd4kP0,945
-linkml/generators/pydanticgen/templates/module.py.jinja,sha256=NLCYn4wgwVBCs8trV2hNq0_BkZgfIIS6zQTmjzFDJCQ,568
-linkml/generators/pydanticgen/templates/validator.py.jinja,sha256=BhXRGrT7HIweVHEE3Z7ZUtFFV8kP1dmRKJfu53jZBBQ,441
+linkml/generators/pydanticgen/templates/imports.py.jinja,sha256=vwAOWV98rM4reAUXUYQXihukTPoVDcs8D9HWsVZmTiQ,1249
+linkml/generators/pydanticgen/templates/module.py.jinja,sha256=hqZKsJ72yUioBkZAunscVgLSe58OFHf0z6-so_b43U4,526
+linkml/generators/pydanticgen/templates/validator.py.jinja,sha256=5vDpqdfxLpie4BzcyjE82agO6NsThIZjNlcz6gq_kFg,465
 linkml/generators/python/__init__.py,sha256=NS9fPEuAo0punDplD91F9mcViXMJJv04Q5NkFcKPNvY,40
-linkml/generators/python/python_ifabsent_processor.py,sha256=a98JCbMsR_Fsdaw8s299-0jFhE0V6F4zLl326ITA7lQ,3848
-linkml/generators/pythongen.py,sha256=3XOWUMEUlknkdpzGMbJrNGWPWxnhwxLHPr5anOk_m2M,52612
+linkml/generators/python/python_ifabsent_processor.py,sha256=io-bLevkdy2xgKl0kqGB3o5iR7O7P1uE4qWEhKt-GcM,3838
+linkml/generators/pythongen.py,sha256=-W8ZgvgDP-Hm4Q9weQiB7xtXMJyadtyfZ6BHC1CmClw,56127
 linkml/generators/rdfgen.py,sha256=OT8oS8MPUVf5UK3OKvRWgAh9iQiWwdyWJSA69PncOw4,2969
 linkml/generators/shacl/__init__.py,sha256=KgMOyESGTdKk2Vhx9uuUYgEJPuJQ-iT1vDQVIMoiXCM,58
 linkml/generators/shacl/shacl_data_type.py,sha256=gX3Y2KyTVPwMyef0cJMTEpU9h0oH-H0ThVDORdNW170,1828
 linkml/generators/shacl/shacl_ifabsent_processor.py,sha256=hbgt5UtVHo_z_JOLkg6ltGRdVuiv65b2PA3x1Oy4ssQ,4269
-linkml/generators/shaclgen.py,sha256=JGk4X-PQadF_D-ciWKBVHuKU4QdfKewC395ujR5EsBk,13392
+linkml/generators/shaclgen.py,sha256=6MKUgvsQ8GGG9j8w8EUqwhMB4VhV2nVURYRRcg2FBfw,14330
 linkml/generators/shexgen.py,sha256=-GFdapDEAUXAjsXdTI7ZlS39YfuvaxfzPkdqUNM19qI,9941
-linkml/generators/sparqlgen.py,sha256=ULvWokNGPADq1qDENoFeRYg3FmjdTh4-Vq-eYjsAEK4,6151
+linkml/generators/sparqlgen.py,sha256=2DaFrFIeMI7QQfiPn79J8ERILlkJALrabDnKK7usDJQ,6188
 linkml/generators/sqlalchemy/__init__.py,sha256=mb9AC1rIFkSiNZhhG0TAk45ol9PjS1XvsrvCjgfVUpQ,249
 linkml/generators/sqlalchemy/sqlalchemy_declarative_template.py,sha256=X_Ws1NUBikMI5HuNgEhl_PIeWM-B-c2B0W9KUBH4QTg,2542
 linkml/generators/sqlalchemy/sqlalchemy_imperative_template.py,sha256=u4ZpponG1h6XROrOHGOf_0H2e6xL1_s8twAOA-gx94A,1622
-linkml/generators/sqlalchemygen.py,sha256=qTyT0s1FhQnCvcgjEsC4OaTWhkgHBAGxcHnxEoF9DmI,9297
-linkml/generators/sqltablegen.py,sha256=nKjUMhd05JaWaME_DjP7AV2DDUulsKpcu7IidhD3PLo,12359
+linkml/generators/sqlalchemygen.py,sha256=MYzEkg8BAgFChiRNqOZK9aMqH-aNGa6-CnpZdbhFX_c,9332
+linkml/generators/sqltablegen.py,sha256=BaWAuvwVHsXVt85GYxzH5_UL3ZeqRI9SojlvMmh4KkE,12395
 linkml/generators/sssomgen.py,sha256=zrZy0WL9fF5bk-XAcB-MZYZkhHhqVRHt2rGBUtfqnLY,6891
 linkml/generators/string_template.md,sha256=kRcfic6entgIaJdpSg6GF3jcjC9wbKsCVM6wVT2qipc,1788
 linkml/generators/summarygen.py,sha256=C9r34928QtVMaXTbdch-mRPB5L0jDTGmTnVmtrKrR-0,3083
 linkml/generators/terminusdbgen.py,sha256=ItJ-HTMkkX22Ex1-UjJZmtEtE2fn6UdjAxDtn20RXV8,4713
-linkml/generators/typescriptgen.py,sha256=y8l1A1hAyuiRmXw0CyPXfamBKWpi7ag_lspfr8bnIds,8594
+linkml/generators/typescriptgen.py,sha256=3738AygrfEnyp0eDzpwbO4x4udLHDXX1Ev4MVM2zBwY,8814
 linkml/generators/yamlgen.py,sha256=38zdh5T4tObFhCHgbUbKbc0UuFh1TmmsWBkWM9gcvsI,1625
 linkml/generators/yumlgen.py,sha256=Bg1MGlhCCQoswB19mFKh8xB0UcL9MQGHlUrAVGZSWkc,12208
 linkml/linter/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
@@ -98,32 +99,33 @@ linkml/linter/formatters/json_formatter.py,sha256=rrOELuETUCFTl1Ewnrus9Rx9hl2g4u
 linkml/linter/formatters/markdown_formatter.py,sha256=sumF2MNJYL5oipLwCftCr3AiaCmVhd9V6di9aYpJ29I,2605
 linkml/linter/formatters/terminal_formatter.py,sha256=xmNwlRieVCssRt3fpnNP5WWw_YXGmaBsbxFoMWufy5M,2085
 linkml/linter/formatters/tsv_formatter.py,sha256=1VW-1Tv16mwhIDpHdExYpJJR3z42K5_XK2C-4mmYYdE,871
-linkml/linter/linter.py,sha256=qfVV-vFT7bUJ2BmmDQteD7Jz8HZ-CNDSvnkyhJ-54H0,5113
+linkml/linter/linter.py,sha256=ETx1C8IbXnrCDWwpBxAz0ahY4ROYcl-pQhwp5RFjzJ8,5145
 linkml/linter/rules.py,sha256=Eg_-lIX1KPsCp3PHdPcBiHmSS5qAVZkHbw5LURfkfXk,11481
 linkml/reporting/__init__.py,sha256=Jo0V_nyEcnWhMukMW-bqW9dlbgCfaRlWm3CO-XzgU84,92
 linkml/reporting/model.py,sha256=-10yNfk8wuRC48ZI-akrWvtlJ9a6RYWET2TzlZV3XXo,8622
 linkml/transformers/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-linkml/transformers/logical_model_transformer.py,sha256=rPeBYzQdLtcEKPe1kwkOWce4N7HZvFaULDrEGKbB-qI,29838
+linkml/transformers/logical_model_transformer.py,sha256=hWc5uF1TYU9_qVZAKm2UtQ6ICoeWLaRCI5OUWmEy94k,29835
 linkml/transformers/model_transformer.py,sha256=tK_MpRDI-q2qfe8KHT6qJHP8ZruKjYx1FcM-Fnjse-E,678
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 linkml/transformers/schema_renamer.py,sha256=DYRbgL9j41M9FdbHYLY3u4YIdDM98laD3cv_lHcgWHQ,5275
 linkml/utils/__init__.py,sha256=Pkyv-Gfb8QoJdInRdJuuUz1Igfe0sT9t8Gv3V_fyTXc,92
 linkml/utils/cli_utils.py,sha256=MdVbox1qr6kDUHUCWAmFhV-D6ebs_nn8vVwB8KDQfew,742
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 linkml/utils/datautils.py,sha256=QlbzwXykh5Fphfe5KxPo6_ekXfniLbHiEGJtLWjUrvY,3742
 linkml/utils/datavalidator.py,sha256=kBdWaVi8IZT1bOwEJgJYx-wZAb_PTBObB9nHpYORfKA,472
 linkml/utils/deprecation.py,sha256=onhB82qjIkKzyUOTO9WDqN6QF3I2cJoyBrbm66vHmgM,8088
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 linkml/utils/helpers.py,sha256=yR8n4zFA5wPcYC7xzRuNF3wO16vG80v6j7DM3qTNmIc,447
 linkml/utils/logictools.py,sha256=BGtcoqr_Rsu08Ywa6lNiL881uZzQmNWk1p4FEIVKYe0,23641
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 linkml/utils/rawloader.py,sha256=nUB8Gfn8yEVwyo6bx0TtB2mBGkilC-fybi0xvQ73Gks,4417
 linkml/utils/schema_builder.py,sha256=LwaLeo65IQBHcmRD1kIxnjI1idFZyZsgfPACPow1_JY,9983
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+linkml/utils/schema_fixer.py,sha256=Z_4XnyvwDDiGxtihq-U3vUTMZvbfCzAAun6cH0Elsss,16766
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 linkml/utils/schemasynopsis.py,sha256=j7sNt6j-E3rmf-1qEo351Kth2kltt6crQV-dxJAGCUE,18414
-linkml/utils/sqlutils.py,sha256=Ddm6nsUd3oqLEWwZj7yakpyhRCO92Vvfl2MobiFaaXo,17083
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 linkml/utils/typereferences.py,sha256=8Yfuz9-HAwOPoJLbIcO_sY9zf32hvPRzGeSOzECfMWA,2232
 linkml/utils/validation.py,sha256=eLw1-d8x3N1V14bSc6H_mJJXo59ryKvvUIBcOJ1dVMw,1438
 linkml/validator/__init__.py,sha256=u0CeorIw50Qqwa60-lIFsJXg-sOdfo90hqvLpyvvwo4,4993
@@ -136,7 +138,7 @@ linkml/validator/loaders/passthrough_loader.py,sha256=fQvBZqzGnpdwpZio4Mbehmsb6e
 linkml/validator/loaders/yaml_loader.py,sha256=ZsMz-oGDkX9oPEOVcKnFRGhU9q0fKoHcL6BLOkCeB4c,914
 linkml/validator/plugins/__init__.py,sha256=0ifiDqpcXVy4X7OJFm7FMYi1-6E06avNIIk9R0c6nD8,693
 linkml/validator/plugins/jsonschema_validation_plugin.py,sha256=c3OjvLR5m83vppsDfkrS9nMXma_ogUxXpZuM_JIUVM4,2634
-linkml/validator/plugins/pydantic_validation_plugin.py,sha256=C-Vp74bz5oqp5V-iuhXW8p0PPDoFY8NCU5x36Ur5Og4,1985
+linkml/validator/plugins/pydantic_validation_plugin.py,sha256=gVjdJiGcZ1EuOTcCMWOUS35W3IpMJQHUgjj6lQ3-41E,1990
 linkml/validator/plugins/recommended_slots_plugin.py,sha256=kOdoYQyye47nLA7BjorVmydS84nGpiVy3MoCbPq1Ymo,2308
 linkml/validator/plugins/shacl_validation_plugin.py,sha256=X6h1O54m9P5USvqCvNqELD0YpzXkE6UrmxnV0ukU6E4,3888
 linkml/validator/plugins/validation_plugin.py,sha256=9SMHF8b2bgG9-8351e8bY676e0A4aEBJSXvMjMF5kXg,1548
@@ -144,15 +146,15 @@ linkml/validator/report.py,sha256=LwFpmJ74Cvsi2CuEDhm1a8nn9x1VI3Z98DbkUZVhKMA,89
 linkml/validator/validation_context.py,sha256=Pmccq-LQ9iEeLyZhamp3mKjjtwp4ji1hIe5TT05AUT4,2732
 linkml/validator/validator.py,sha256=BFgfKdu9Nad2dc9XTpmz9daQTj_FTcvo6mBq3e8fhJs,5649
 linkml/validators/__init__.py,sha256=43W3J5NPKhwa3ZFHLRYsJMocwQKWGYCF9Ki9r0ccGbc,202
-linkml/validators/jsonschemavalidator.py,sha256=LVhBF3Fp4Ltjeaov36duoODxXVXwKqe07SrohH_uzhg,7968
-linkml/validators/sparqlvalidator.py,sha256=KU4Vj-B3i_0Fde0Sn89oqkOVxt1UGW3uI4F6YNoJMTQ,4625
+linkml/validators/jsonschemavalidator.py,sha256=zGDPKjr13hXHSH8g1KOzo4PXrfM_TTvpwq_jD03aVUw,8005
+linkml/validators/sparqlvalidator.py,sha256=0iq-oFFLV0Juu6pJskpLOlB7AMZwU3VFvoflzW4ohH8,4660
 linkml/workspaces/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 linkml/workspaces/datamodel/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 linkml/workspaces/datamodel/workspaces.py,sha256=4HdkqweGNfMPqnB1_Onc9DcTfkhoagTRcqruh08nRoI,14905
 linkml/workspaces/datamodel/workspaces.yaml,sha256=EjVrwPpeRZqJRjuGyyDRxxFzuv55SiLIXPBRUG6HStU,4233
-linkml/workspaces/example_runner.py,sha256=qrn3EALJsHpyzQXo2npg5oTmMNQTrCjaNIAuMV0P5c8,11720
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-linkml-1.8.3.dist-info/METADATA,sha256=riRcN5vHtkNy2v364JshSNmukypRDIFaw0B7JbQuv_E,3731
-linkml-1.8.3.dist-info/RECORD,,
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