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microbiomedata / sheets_and_friends

Enhance a LinkML model with imported and optionally modified slots
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skipping shacl generation #11

Closed turbomam closed 1 year ago

turbomam commented 2 years ago

was there an error? what was it?

turbomam commented 2 years ago

INFO:root: ARGS: {'mergeimports': True} INFO:root: WRITING TO: project/shex/soil_emls_jgi_mg_new_shuttled_modified.shex INFO:root:Generating: shacl INFO:root: SCHEMA: artifacts/soil_emls_jgi_mg_new_shuttled_modified.yaml INFO:root: PARENT=project/shacl INFO:root: ARGS: {'mergeimports': True} INFO:root:Loading schema https://w3id.org/linkml/types from artifacts/soil_emls_jgi_mg_new_shuttled_modified.yaml Traceback (most recent call last): File "/Users/MAM/Library/Caches/pypoetry/virtualenvs/sheets-and-friends-XU_YBljG-py3.9/bin/gen-project", line 8, in sys.exit(cli()) File "/Users/MAM/Library/Caches/pypoetry/virtualenvs/sheets-and-friends-XU_YBljG-py3.9/lib/python3.9/site-packages/click/core.py", line 1128, in call return self.main(args, kwargs) File "/Users/MAM/Library/Caches/pypoetry/virtualenvs/sheets-and-friends-XU_YBljG-py3.9/lib/python3.9/site-packages/click/core.py", line 1053, in main rv = self.invoke(ctx) File "/Users/MAM/Library/Caches/pypoetry/virtualenvs/sheets-and-friends-XU_YBljG-py3.9/lib/python3.9/site-packages/click/core.py", line 1395, in invoke return ctx.invoke(self.callback, ctx.params) File "/Users/MAM/Library/Caches/pypoetry/virtualenvs/sheets-and-friends-XU_YBljG-py3.9/lib/python3.9/site-packages/click/core.py", line 754, in invoke return __callback(args, kwargs) File "/Users/MAM/Library/Caches/pypoetry/virtualenvs/sheets-and-friends-XU_YBljG-py3.9/lib/python3.9/site-packages/linkml/generators/projectgen.py", line 191, in cli gen.generate(yamlfile, project_config) File "/Users/MAM/Library/Caches/pypoetry/virtualenvs/sheets-and-friends-XU_YBljG-py3.9/lib/python3.9/site-packages/linkml/generators/projectgen.py", line 114, in generate gen_dump = gen.serialize(serialize_args) File "/Users/MAM/Library/Caches/pypoetry/virtualenvs/sheets-and-friends-XU_YBljG-py3.9/lib/python3.9/site-packages/linkml/generators/shaclgen.py", line 40, in serialize g = self.as_graph() File "/Users/MAM/Library/Caches/pypoetry/virtualenvs/sheets-and-friends-XU_YBljG-py3.9/lib/python3.9/site-packages/linkml/generators/shaclgen.py", line 71, in as_graph slot_uri = URIRef(sv.get_uri(s, expand=True)) File "/Users/MAM/Library/Caches/pypoetry/virtualenvs/sheets-and-friends-XU_YBljG-py3.9/lib/python3.9/site-packages/linkml_runtime/utils/schemaview.py", line 656, in get_uri schema = next(sc for sc in self.schema_map.values() if sc.id == e.from_schema) StopIteration