mirror of
https://github.com/p2p-ld/nwb-linkml.git
synced 2024-09-19 23:44:28 +00:00
70 lines
2.3 KiB
Python
70 lines
2.3 KiB
Python
import pdb
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from pathlib import Path
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from typing import Dict
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import pytest
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import warnings
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from .fixtures import nwb_core_fixture, tmp_output_dir
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from linkml_runtime.dumpers import yaml_dumper
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from linkml_runtime.linkml_model import SchemaDefinition
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from nwb_linkml.generators.pydantic import NWBPydanticGenerator
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from linkml_runtime.loaders.yaml_loader import YAMLLoader
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from nwb_linkml.lang_elements import NwbLangSchema
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def test_generate_nwblang(tmp_output_dir):
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output_file = (tmp_output_dir / NwbLangSchema.name).with_suffix('.yml')
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yaml_dumper.dump(NwbLangSchema, output_file)
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def test_generate_core(nwb_core_fixture, tmp_output_dir):
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schemas = nwb_core_fixture.build().schemas
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(tmp_output_dir / 'schema').mkdir(exist_ok=True)
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for schema in schemas:
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output_file = tmp_output_dir / 'schema' / (schema.name + '.yaml')
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yaml_dumper.dump(schema, output_file)
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def load_schema_files(path: Path) -> Dict[str, SchemaDefinition]:
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yaml_loader = YAMLLoader()
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sch: SchemaDefinition
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preloaded_schema = {}
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for schema_path in (path / 'schema').glob('*.yaml'):
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sch = yaml_loader.load(str(schema_path), target_class=SchemaDefinition)
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preloaded_schema[sch.name] = sch
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return preloaded_schema
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@pytest.mark.depends(on=['test_generate_core'])
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def test_generate_pydantic(tmp_output_dir):
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(tmp_output_dir / 'models').mkdir(exist_ok=True)
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preloaded_schema = load_schema_files(tmp_output_dir)
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for schema_path in (tmp_output_dir / 'schema').glob('*.yaml'):
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if not schema_path.exists():
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continue
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# python friendly name
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python_name = schema_path.stem.replace('.', '_').replace('-','_')
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pydantic_file = (schema_path.parent.parent / 'models' / python_name).with_suffix('.py')
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generator = NWBPydanticGenerator(
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str(schema_path),
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pydantic_version='2',
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emit_metadata=True,
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gen_classvars=True,
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gen_slots=True,
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schema_map=preloaded_schema
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)
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gen_pydantic = generator.serialize()
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with open(pydantic_file, 'w') as pfile:
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pfile.write(gen_pydantic)
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# make __init__.py
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with open(tmp_output_dir / 'models' / '__init__.py', 'w') as initfile:
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initfile.write('# Autogenerated module indicator')
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