open-kgo 0.2.1__tar.gz
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.
- open_kgo-0.2.1/LICENSE +201 -0
- open_kgo-0.2.1/PKG-INFO +264 -0
- open_kgo-0.2.1/README.md +203 -0
- open_kgo-0.2.1/open_kgo/__init__.py +0 -0
- open_kgo-0.2.1/open_kgo/compute_frameworks/__init__.py +16 -0
- open_kgo-0.2.1/open_kgo/compute_frameworks/python_dict_kg_framework.py +93 -0
- open_kgo-0.2.1/open_kgo/compute_frameworks/tests/__init__.py +0 -0
- open_kgo-0.2.1/open_kgo/compute_frameworks/tests/test_python_dict_kg_framework.py +111 -0
- open_kgo-0.2.1/open_kgo/extenders/__init__.py +1 -0
- open_kgo-0.2.1/open_kgo/feature_groups/__init__.py +1 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/__init__.py +7 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/agent_memory/__init__.py +33 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/agent_memory/base.py +102 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/agent_memory/graph_walk_memory.py +111 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/agent_memory/networkx_memory.py +106 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/agent_memory/shared.py +97 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/agent_memory/tests/__init__.py +0 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/agent_memory/tests/kg_agent_memory_contract.py +21 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/agent_memory/tests/test_graph_walk_memory.py +262 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/agent_memory/tests/test_networkx_memory.py +125 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/base.py +40 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/citation_rest/__init__.py +21 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/citation_rest/base.py +47 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/citation_rest/file_fixture_citation.py +82 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/citation_rest/paginated_citation.py +104 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/citation_rest/tests/__init__.py +0 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/citation_rest/tests/kg_citation_rest_contract.py +15 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/citation_rest/tests/test_file_fixture_citation.py +110 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/citation_rest/tests/test_paginated_citation.py +250 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/class_guards.py +196 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/code_build/__init__.py +36 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/code_build/base.py +52 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/code_build/cyclonedx_sbom.py +60 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/code_build/spdx_sbom.py +195 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/code_build/tests/__init__.py +0 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/code_build/tests/kg_code_build_contract.py +15 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/code_build/tests/test_cyclonedx_sbom.py +57 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/code_build/tests/test_spdx_sbom.py +391 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/conftest.py +52 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/credentials.py +257 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/embedded/__init__.py +15 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/embedded/base.py +100 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/embedded/igraph_embedded.py +145 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/embedded/networkx_embedded.py +104 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/embedded/tests/__init__.py +0 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/embedded/tests/kg_embedded_contract.py +71 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/embedded/tests/test_igraph_embedded.py +149 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/embedded/tests/test_networkx_embedded.py +60 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/errors.py +164 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/feature_group.py +54 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/fixtures.py +371 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/lineage/__init__.py +18 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/lineage/base.py +35 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/lineage/dbt_manifest.py +116 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/lineage/openlineage_events.py +195 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/lineage/tests/__init__.py +0 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/lineage/tests/kg_lineage_contract.py +21 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/lineage/tests/test_dbt_manifest.py +151 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/lineage/tests/test_openlineage_events.py +415 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/mixins.py +301 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/network_pg/__init__.py +13 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/network_pg/base.py +51 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/network_pg/grand_cypher.py +170 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/network_pg/kuzu_cypher.py +81 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/network_pg/tests/__init__.py +0 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/network_pg/tests/kg_network_pg_contract.py +14 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/network_pg/tests/test_grand_cypher.py +237 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/network_pg/tests/test_kuzu_cypher.py +113 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/ontology/__init__.py +4 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/ontology/registry.py +195 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/ontology/semantic_field.py +373 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/ontology/tests/__init__.py +0 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/ontology/tests/test_ontology_integration.py +273 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/ontology/tests/test_registry.py +176 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/ontology/tests/test_semantic_field.py +194 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/ontology/tests/test_semantic_field_scale.py +209 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/rdf/__init__.py +17 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/rdf/base.py +64 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/rdf/oxigraph_sparql.py +141 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/rdf/rdflib_sparql.py +102 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/rdf/tests/__init__.py +0 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/rdf/tests/kg_rdf_contract.py +39 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/rdf/tests/test_oxigraph_sparql.py +260 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/rdf/tests/test_rdflib_sparql.py +121 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/reader_base.py +792 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/readers.py +252 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/rest_public/__init__.py +26 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/rest_public/base.py +42 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/rest_public/file_fixture_paged_rest.py +127 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/rest_public/file_fixture_rest.py +112 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/rest_public/tests/__init__.py +0 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/rest_public/tests/kg_rest_public_contract.py +15 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/rest_public/tests/test_file_fixture_paged_rest.py +203 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/rest_public/tests/test_file_fixture_rest.py +120 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/saas_authz/__init__.py +20 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/saas_authz/base.py +62 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/saas_authz/in_process_tuple_store.py +191 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/saas_authz/paginated_tuple_store.py +201 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/saas_authz/shared.py +37 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/saas_authz/tests/__init__.py +0 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/saas_authz/tests/kg_saas_authz_contract.py +10 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/saas_authz/tests/test_in_process_tuple_store.py +94 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/saas_authz/tests/test_paginated_tuple_store.py +347 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/spec.py +103 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/__init__.py +0 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/_discovery.py +252 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/_family_cases.py +474 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/_helpers.py +211 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/contract_adapters.py +67 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/contract_credentials.py +419 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/contract_load.py +160 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/contract_params.py +185 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/contract_surface.py +98 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/kg_contract.py +67 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/test_abstract_base_and_result_limit_bounds.py +269 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/test_base_validation.py +313 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/test_cross_group_contract.py +96 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/test_cross_layer_pagination.py +231 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/test_discovery_helpers.py +354 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/test_helpers.py +321 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/test_kg_catalog_declarations.py +131 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/test_kg_registry_integrity.py +76 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/test_kg_usage_smoke.py +34 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/test_property_mapping_integrity.py +732 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/test_resource_cache.py +417 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/test_spec.py +88 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/test_validate_params_collect_all.py +113 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/tests/test_validation_contract.py +225 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/traversal.py +125 -0
- open_kgo-0.2.1/open_kgo/feature_groups/kg/validation.py +60 -0
- open_kgo-0.2.1/open_kgo/py.typed +0 -0
- open_kgo-0.2.1/open_kgo.egg-info/PKG-INFO +264 -0
- open_kgo-0.2.1/open_kgo.egg-info/SOURCES.txt +140 -0
- open_kgo-0.2.1/open_kgo.egg-info/dependency_links.txt +1 -0
- open_kgo-0.2.1/open_kgo.egg-info/requires.txt +50 -0
- open_kgo-0.2.1/open_kgo.egg-info/top_level.txt +1 -0
- open_kgo-0.2.1/pyproject.toml +104 -0
- open_kgo-0.2.1/setup.cfg +4 -0
- open_kgo-0.2.1/tests/test_demo_data.py +124 -0
- open_kgo-0.2.1/tests/test_demo_notebooks.py +57 -0
- open_kgo-0.2.1/tests/test_metaqa_build_sample.py +71 -0
- open_kgo-0.2.1/tests/test_mloda_imports.py +23 -0
open_kgo-0.2.1/LICENSE
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open_kgo-0.2.1/PKG-INFO
ADDED
|
@@ -0,0 +1,264 @@
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1
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Metadata-Version: 2.4
|
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2
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+
Name: open-kgo
|
|
3
|
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Version: 0.2.1
|
|
4
|
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Summary: Open Knowledge Graphs and Ontologies plugin for mloda.
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Author-email: Tom Kaltofen <tomkaltofen@mloda.ai>
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License-Expression: Apache-2.0
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Project-URL: Homepage, https://github.com/mloda-ai/open-kgo
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Project-URL: Repository, https://github.com/mloda-ai/open-kgo
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Project-URL: Issues, https://github.com/mloda-ai/open-kgo/issues
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Classifier: Development Status :: 3 - Alpha
|
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|
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Classifier: Intended Audience :: Developers
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Classifier: Intended Audience :: Science/Research
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Classifier: Programming Language :: Python :: 3
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Classifier: Programming Language :: Python :: 3.10
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Classifier: Programming Language :: Python :: 3.11
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Classifier: Programming Language :: Python :: 3.12
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Classifier: Programming Language :: Python :: 3.13
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Classifier: Programming Language :: Python :: 3.14
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Classifier: Topic :: Scientific/Engineering
|
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Classifier: Typing :: Typed
|
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Requires-Python: >=3.10
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Description-Content-Type: text/markdown
|
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License-File: LICENSE
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Requires-Dist: mloda>=0.8.0
|
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Requires-Dist: mloda-testing>=0.3.1
|
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Provides-Extra: dev
|
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Requires-Dist: tox; extra == "dev"
|
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Requires-Dist: tox-uv; extra == "dev"
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Requires-Dist: uv>=0.11.6; extra == "dev"
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Requires-Dist: pytest; extra == "dev"
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Requires-Dist: ruff; extra == "dev"
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Requires-Dist: mypy; extra == "dev"
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Requires-Dist: bandit; extra == "dev"
|
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Provides-Extra: kg-rdf
|
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|
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Requires-Dist: rdflib>=7.0; extra == "kg-rdf"
|
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Requires-Dist: pyoxigraph>=0.5.9; extra == "kg-rdf"
|
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Provides-Extra: kg-embedded
|
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|
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Requires-Dist: networkx>=3.2; extra == "kg-embedded"
|
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Requires-Dist: igraph>=0.11; extra == "kg-embedded"
|
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|
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Provides-Extra: kg-network-pg
|
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|
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Requires-Dist: kuzu>=0.4; extra == "kg-network-pg"
|
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|
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Requires-Dist: networkx>=3.2; extra == "kg-network-pg"
|
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|
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Requires-Dist: grand-cypher>=0.12; extra == "kg-network-pg"
|
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|
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Provides-Extra: kg-memory
|
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|
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Requires-Dist: networkx>=3.2; extra == "kg-memory"
|
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|
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Provides-Extra: kg-ontology
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|
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Requires-Dist: pyyaml>=6.0; extra == "kg-ontology"
|
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|
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Provides-Extra: kg-semantic-field
|
|
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|
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Requires-Dist: pyyaml>=6.0; extra == "kg-semantic-field"
|
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|
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Provides-Extra: kg-rest
|
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|
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Provides-Extra: kg-lineage
|
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|
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Provides-Extra: kg-codebuild
|
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|
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Provides-Extra: kg-saas
|
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|
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Provides-Extra: kg-citation
|
|
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|
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Provides-Extra: kg-all
|
|
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|
+
Requires-Dist: open-kgo[kg-citation,kg-codebuild,kg-embedded,kg-lineage,kg-memory,kg-network-pg,kg-ontology,kg-rdf,kg-rest,kg-saas,kg-semantic-field]; extra == "kg-all"
|
|
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|
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Provides-Extra: demo
|
|
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|
+
Requires-Dist: marimo; extra == "demo"
|
|
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|
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Requires-Dist: open-kgo[kg-all]; extra == "demo"
|
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|
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Dynamic: license-file
|
|
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|
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|
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|
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[](LICENSE)
|
|
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|
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[](https://github.com/mloda-ai/mloda)
|
|
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|
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[](https://www.python.org/)
|
|
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|
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|
|
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|
+
# open-kgo
|
|
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|
+
|
|
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|
+
Open Knowledge Graphs and Ontologies plugin for [mloda](https://github.com/mloda-ai/mloda): nine connector families covering the knowledge-graph landscape, from SPARQL endpoints to SBOMs to agent memory, all behind one declarative `Feature` interface. Every connector and demo runs offline against in-memory libraries or committed fixtures. No Docker, no network.
|
|
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|
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|
|
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|
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## At a glance
|
|
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|
+
|
|
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|
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| Section | What you'll find |
|
|
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|
+
|---|---|
|
|
74
|
+
| [Quickstart](#quickstart) | Run a SPARQL query against a shipped sample file in under a minute |
|
|
75
|
+
| [The nine connector families](#the-nine-connector-families) | The core of this repo: a 9-family KG connector taxonomy with two plugins each |
|
|
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|
+
| [Semantic Fields — Layer 2](#semantic-fields--layer-2) | Continuous, schema-grounded entity scoring via DC circuit model |
|
|
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|
+
| [Demos](#demos) | Marimo notebooks and evaluation harnesses, all offline |
|
|
78
|
+
| [Data and acknowledgments](#data-and-acknowledgments) | Where the sample data comes from |
|
|
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|
+
| [Development setup](#development-setup) | uv, tox, and the individual checks |
|
|
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|
+
| [Related repositories and documentation](#related-repositories-and-documentation) | mloda core, the plugin registry, and development guides |
|
|
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|
+
|
|
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|
+
## Quickstart
|
|
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|
+
|
|
84
|
+
Install the connectors and run a SPARQL query against the Turtle sample shipped in this repo:
|
|
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|
+
|
|
86
|
+
```bash
|
|
87
|
+
uv sync --extra kg-all
|
|
88
|
+
```
|
|
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|
+
|
|
90
|
+
```python
|
|
91
|
+
from pathlib import Path
|
|
92
|
+
|
|
93
|
+
from mloda.user import DataAccessCollection, Feature, Options, mloda
|
|
94
|
+
|
|
95
|
+
import open_kgo.feature_groups.kg.rdf.rdflib_sparql as rdf_mod
|
|
96
|
+
from open_kgo.compute_frameworks.python_dict_kg_framework import KgPythonDictFramework
|
|
97
|
+
|
|
98
|
+
# Point at any RDF file. Here: the Turtle sample shipped in this repo.
|
|
99
|
+
ttl = Path(rdf_mod.__file__).parent / "tests" / "fixtures" / "sample.ttl"
|
|
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|
+
|
|
101
|
+
feature = Feature(
|
|
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|
+
"rdflib_sparql__knows",
|
|
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|
+
options=Options(context={
|
|
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|
+
"query_text": "PREFIX foaf: <http://xmlns.com/foaf/0.1/> "
|
|
105
|
+
"SELECT ?s ?o WHERE { ?s foaf:knows ?o }",
|
|
106
|
+
}),
|
|
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|
+
)
|
|
108
|
+
|
|
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|
+
partitions = mloda.run_all(
|
|
110
|
+
[feature],
|
|
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|
+
compute_frameworks={KgPythonDictFramework},
|
|
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|
+
data_access_collection=DataAccessCollection(
|
|
113
|
+
credentials=[{"rdflib_sparql": {"locator": str(ttl), "result_limit": 100}}],
|
|
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|
+
),
|
|
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|
+
)
|
|
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|
+
|
|
117
|
+
for partition in partitions:
|
|
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|
+
for row in partition:
|
|
119
|
+
print(row[feature.name])
|
|
120
|
+
```
|
|
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|
+
|
|
122
|
+
Swap `rdflib_sparql` for any of the nine connector families below: same `Feature` to `mloda.run_all` shape, different reader.
|
|
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|
+
|
|
124
|
+
## The nine connector families
|
|
125
|
+
|
|
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|
+
`open_kgo/feature_groups/kg/` ships a connector taxonomy derived from a 103-system survey. Each family is a shared reader and feature-group base plus **two** concrete plugins running against in-memory libraries or local file fixtures:
|
|
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|
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|
|
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|
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| Family | What it connects to | Concrete plugins |
|
|
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|
+
|---|---|---|
|
|
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|
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| `network_pg` | Property-graph databases with a vendor query language (Neo4j, Memgraph, Neptune, ...) | `KuzuCypherReader`, `GrandCypherReader` |
|
|
131
|
+
| `rdf` | RDF triple stores queried with SPARQL | `RdfLibSparqlReader`, `OxigraphSparqlReader` |
|
|
132
|
+
| `embedded` | In-process graph libraries with no network endpoint | `NetworkxEmbeddedReader`, `IGraphEmbeddedReader` |
|
|
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|
+
| `rest_public` | Public REST (non-SPARQL) KG APIs (OpenAlex, ConceptNet, STRING, ...) | `FileFixtureRestReader`, `FileFixturePagedRestReader` |
|
|
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|
+
| `lineage` | Metadata and data-lineage graphs (dbt, OpenLineage, DataHub, ...) | `DbtManifestReader`, `OpenLineageReader` |
|
|
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|
+
| `code_build` | Code, build, and SBOM dependency graphs (CycloneDX, SPDX, ...) | `CycloneDxSbomReader`, `SpdxSbomReader` |
|
|
136
|
+
| `saas_authz` | SaaS and authorization tuple stores (OpenFGA, SpiceDB, Microsoft Graph, ...) | `InProcessTupleStoreReader`, `PaginatedTupleStoreReader` |
|
|
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|
+
| `agent_memory` | LLM agent memory and GraphRAG graphs (Letta, Zep, Mem0, ...) | `NetworkxMemoryReader`, `GraphWalkMemoryReader` |
|
|
138
|
+
| `citation_rest` | Citation and scientific REST APIs (Reactome, OpenAlex citations, ...) | `FileFixtureCitationReader`, `PaginatedCitationReader` |
|
|
139
|
+
|
|
140
|
+
See [`open_kgo/feature_groups/kg/README.md`](open_kgo/feature_groups/kg/README.md) for the full family map, the plugin anatomy, and what the prototype does and does not validate.
|
|
141
|
+
|
|
142
|
+
Install all KG extras with: `uv sync --extra kg-all`.
|
|
143
|
+
|
|
144
|
+
> **One feature per call.** KG readers dispatch a single feature per load: every
|
|
145
|
+
> reader rejects a multi-feature `FeatureSet` rather than silently labelling all
|
|
146
|
+
> rows with one feature name. Request features individually (one `Feature` per
|
|
147
|
+
> `mloda.run_all` slot) rather than batching `N` of them into a single reader call.
|
|
148
|
+
|
|
149
|
+
> **No-Docker testing policy.** Every connector test runs against rdflib, networkx, kuzu (embedded), or file fixtures. No Docker, no external services, no network calls.
|
|
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|
+
|
|
151
|
+
## Semantic Fields — Layer 2
|
|
152
|
+
|
|
153
|
+
The connector families (Layer 1 validation) answer: *"is this traversal valid?"* — binary yes/no.
|
|
154
|
+
|
|
155
|
+
**SemanticField** (Layer 2) answers: *"how relevant is this entity to my query?"* — a continuous score, grounded in DC electrical circuit theory.
|
|
156
|
+
|
|
157
|
+
The knowledge graph is modelled as a resistor network. Ontology-declared relationship weights become conductances. A query is expressed as two anchor nodes — a **source** (high voltage) and a **sink** (low voltage, ground). The solver finds the electric potential at every entity via the conductance-weighted graph Laplacian, then scores each entity by the current it carries between source and sink.
|
|
158
|
+
|
|
159
|
+
**Why current?** Current only flows through entities that bridge *both* anchors. An entity connected to only one side floats to that side's extreme voltage — zero potential difference, zero current, automatically excluded. No relation-type filtering needed; the circuit topology enforces the AND constraint.
|
|
160
|
+
|
|
161
|
+
```python
|
|
162
|
+
from open_kgo.feature_groups.kg.ontology import SemanticField
|
|
163
|
+
|
|
164
|
+
# AND query: Sci-Fi films by Nolan
|
|
165
|
+
scores = SemanticField.compute_and(
|
|
166
|
+
namespace="metaqa",
|
|
167
|
+
edges=subgraph_edges, # 2-hop neighbourhood of both anchors
|
|
168
|
+
source={"Nolan": 1.0}, # high-voltage anchor
|
|
169
|
+
sink={"Sci-Fi": 0.0}, # ground
|
|
170
|
+
)
|
|
171
|
+
# → {"Interstellar": 0.394, "Inception": 0.312, "Dark Knight": 0.0, ...}
|
|
172
|
+
```
|
|
173
|
+
|
|
174
|
+
Relationship weights are declared in the ontology YAML and flow directly into the solver as conductances:
|
|
175
|
+
|
|
176
|
+
```yaml
|
|
177
|
+
relationships:
|
|
178
|
+
directed_by: { domain: Movie, range: Person, weight: 0.9 }
|
|
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has_genre: { domain: Movie, range: Genre, weight: 0.7 }
|
|
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has_tags: { domain: Movie, range: Tag, weight: 0.2 }
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|
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|
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```
|
|
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|
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|
|
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The solver is pure Python (no numpy) with an optional numba JIT kernel that gives a **70× speedup** at ~5 000-node subgraphs; it falls back silently when numba is absent.
|
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| Layer | What it does | Status |
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|---|---|---|
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| L1 — OntologyRegistry | Binary valid/invalid edge checks, YAML-declared | Built |
|
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| L2 — SemanticField | Continuous entity scoring via DC circuit model | Built |
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| L3 — Discovery Engine | Guided multi-hop traversal by field strength | Planned |
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Install: `uv sync --extra kg-semantic-field`
|
|
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|
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Full visual explainer: [`demo/semantic_field_explainer.html`](demo/semantic_field_explainer.html) — open in any browser, no server needed.
|
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## Demos
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Three marimo notebooks plus two evaluation harnesses live under `demo/`:
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- `demo/demo_kg_connectors.py`: surface tour of all 9 families against the shipped fixtures.
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- `demo/demo_kg_build_repo.py`: builds an RDF graph from this repo (filesystem `repo:contains` + Python `repo:imports`), serializes to Turtle, and runs five SPARQL queries through `RdfLibSparqlReader` via `mloda.run_all`.
|
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- `demo/demo_kg_ontology.py`: walks the ontology layer end to end.
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- `demo/demo_semantic_field.py`: SemanticField Layer 2 — interactive director + genre query against MetaQA, with live scoring.
|
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- `demo/semantic_field_explainer.html`: full visual explainer for SemanticField — circuit diagram, layer stack, why EM, 1/2/multi-hop examples, test results. Open in any browser.
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- `demo/eval_arch1_vs_arch2.py` and `demo/eval_qa_accuracy.py`: evaluation harnesses comparing plain traversal vs. ontology-guided traversal.
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Install the demo extras and open any notebook:
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```bash
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uv sync --extra demo
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marimo edit demo/demo_kg_connectors.py
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```
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Every demo runs offline against a small committed sample graph: no download,
|
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no network, no external services.
|
|
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+
|
|
216
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+
## Data and acknowledgments
|
|
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|
+
|
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218
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+
The ontology demo and the two evaluation harnesses run against a small
|
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hand-authored sample of public movie facts (`demo/data/sample_kb.txt`) written
|
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220
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in the triple format of the MetaQA dataset (Zhang, Yuyu et al., "Variational
|
|
221
|
+
Reasoning for Question Answering with Knowledge Graph", AAAI 2018,
|
|
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+
https://github.com/yuyuz/MetaQA). The sample is committed in this repo and is
|
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not derived from the MetaQA dataset files. The notebooks call
|
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`demo.data.ensure_data()` at startup, which builds the sample subgraph offline.
|
|
225
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+
To run against the full MetaQA benchmark (licensed under
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226
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+
[CC BY 3.0](https://creativecommons.org/licenses/by/3.0/legalcode), not
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redistributed here), see [`demo/data/README.md`](demo/data/README.md).
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|
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+
|
|
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+
## Development setup
|
|
230
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+
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+
**Install uv** (if not already installed):
|
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+
```bash
|
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curl -LsSf https://astral.sh/uv/install.sh | sh
|
|
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|
+
```
|
|
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+
|
|
236
|
+
**Create virtual environment and install dependencies:**
|
|
237
|
+
```bash
|
|
238
|
+
uv venv
|
|
239
|
+
source .venv/bin/activate
|
|
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+
uv sync --all-extras
|
|
241
|
+
```
|
|
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|
+
|
|
243
|
+
**Run all checks with tox:**
|
|
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|
+
```bash
|
|
245
|
+
uv tool install tox --with tox-uv
|
|
246
|
+
tox
|
|
247
|
+
```
|
|
248
|
+
|
|
249
|
+
### Run individual checks
|
|
250
|
+
|
|
251
|
+
```bash
|
|
252
|
+
pytest
|
|
253
|
+
ruff format --check --line-length 120 .
|
|
254
|
+
ruff check .
|
|
255
|
+
mypy --strict --ignore-missing-imports .
|
|
256
|
+
bandit -c pyproject.toml -r -q .
|
|
257
|
+
```
|
|
258
|
+
|
|
259
|
+
## Related repositories and documentation
|
|
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|
+
|
|
261
|
+
- **[mloda](https://github.com/mloda-ai/mloda)**: The core library for open data access. Declaratively define what data you need, not how to get it. See [mloda.ai](https://mloda.ai) for an overview and business context and the [documentation](https://mloda-ai.github.io/mloda/) for detailed guides.
|
|
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- **[mloda-registry](https://github.com/mloda-ai/mloda-registry)**: The central hub for discovering and sharing mloda plugins.
|
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- **[Plugin development guides](https://github.com/mloda-ai/mloda-registry/tree/main/docs/guides/)**: How to build FeatureGroups, ComputeFrameworks, and Extenders.
|
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- **[Claude Code skills](https://github.com/mloda-ai/mloda-registry/tree/main/.claude/skills/)**: Assisted plugin development for Claude Code users.
|
open_kgo-0.2.1/README.md
ADDED
|
@@ -0,0 +1,203 @@
|
|
|
1
|
+
[](LICENSE)
|
|
2
|
+
[](https://github.com/mloda-ai/mloda)
|
|
3
|
+
[](https://www.python.org/)
|
|
4
|
+
|
|
5
|
+
# open-kgo
|
|
6
|
+
|
|
7
|
+
Open Knowledge Graphs and Ontologies plugin for [mloda](https://github.com/mloda-ai/mloda): nine connector families covering the knowledge-graph landscape, from SPARQL endpoints to SBOMs to agent memory, all behind one declarative `Feature` interface. Every connector and demo runs offline against in-memory libraries or committed fixtures. No Docker, no network.
|
|
8
|
+
|
|
9
|
+
## At a glance
|
|
10
|
+
|
|
11
|
+
| Section | What you'll find |
|
|
12
|
+
|---|---|
|
|
13
|
+
| [Quickstart](#quickstart) | Run a SPARQL query against a shipped sample file in under a minute |
|
|
14
|
+
| [The nine connector families](#the-nine-connector-families) | The core of this repo: a 9-family KG connector taxonomy with two plugins each |
|
|
15
|
+
| [Semantic Fields — Layer 2](#semantic-fields--layer-2) | Continuous, schema-grounded entity scoring via DC circuit model |
|
|
16
|
+
| [Demos](#demos) | Marimo notebooks and evaluation harnesses, all offline |
|
|
17
|
+
| [Data and acknowledgments](#data-and-acknowledgments) | Where the sample data comes from |
|
|
18
|
+
| [Development setup](#development-setup) | uv, tox, and the individual checks |
|
|
19
|
+
| [Related repositories and documentation](#related-repositories-and-documentation) | mloda core, the plugin registry, and development guides |
|
|
20
|
+
|
|
21
|
+
## Quickstart
|
|
22
|
+
|
|
23
|
+
Install the connectors and run a SPARQL query against the Turtle sample shipped in this repo:
|
|
24
|
+
|
|
25
|
+
```bash
|
|
26
|
+
uv sync --extra kg-all
|
|
27
|
+
```
|
|
28
|
+
|
|
29
|
+
```python
|
|
30
|
+
from pathlib import Path
|
|
31
|
+
|
|
32
|
+
from mloda.user import DataAccessCollection, Feature, Options, mloda
|
|
33
|
+
|
|
34
|
+
import open_kgo.feature_groups.kg.rdf.rdflib_sparql as rdf_mod
|
|
35
|
+
from open_kgo.compute_frameworks.python_dict_kg_framework import KgPythonDictFramework
|
|
36
|
+
|
|
37
|
+
# Point at any RDF file. Here: the Turtle sample shipped in this repo.
|
|
38
|
+
ttl = Path(rdf_mod.__file__).parent / "tests" / "fixtures" / "sample.ttl"
|
|
39
|
+
|
|
40
|
+
feature = Feature(
|
|
41
|
+
"rdflib_sparql__knows",
|
|
42
|
+
options=Options(context={
|
|
43
|
+
"query_text": "PREFIX foaf: <http://xmlns.com/foaf/0.1/> "
|
|
44
|
+
"SELECT ?s ?o WHERE { ?s foaf:knows ?o }",
|
|
45
|
+
}),
|
|
46
|
+
)
|
|
47
|
+
|
|
48
|
+
partitions = mloda.run_all(
|
|
49
|
+
[feature],
|
|
50
|
+
compute_frameworks={KgPythonDictFramework},
|
|
51
|
+
data_access_collection=DataAccessCollection(
|
|
52
|
+
credentials=[{"rdflib_sparql": {"locator": str(ttl), "result_limit": 100}}],
|
|
53
|
+
),
|
|
54
|
+
)
|
|
55
|
+
|
|
56
|
+
for partition in partitions:
|
|
57
|
+
for row in partition:
|
|
58
|
+
print(row[feature.name])
|
|
59
|
+
```
|
|
60
|
+
|
|
61
|
+
Swap `rdflib_sparql` for any of the nine connector families below: same `Feature` to `mloda.run_all` shape, different reader.
|
|
62
|
+
|
|
63
|
+
## The nine connector families
|
|
64
|
+
|
|
65
|
+
`open_kgo/feature_groups/kg/` ships a connector taxonomy derived from a 103-system survey. Each family is a shared reader and feature-group base plus **two** concrete plugins running against in-memory libraries or local file fixtures:
|
|
66
|
+
|
|
67
|
+
| Family | What it connects to | Concrete plugins |
|
|
68
|
+
|---|---|---|
|
|
69
|
+
| `network_pg` | Property-graph databases with a vendor query language (Neo4j, Memgraph, Neptune, ...) | `KuzuCypherReader`, `GrandCypherReader` |
|
|
70
|
+
| `rdf` | RDF triple stores queried with SPARQL | `RdfLibSparqlReader`, `OxigraphSparqlReader` |
|
|
71
|
+
| `embedded` | In-process graph libraries with no network endpoint | `NetworkxEmbeddedReader`, `IGraphEmbeddedReader` |
|
|
72
|
+
| `rest_public` | Public REST (non-SPARQL) KG APIs (OpenAlex, ConceptNet, STRING, ...) | `FileFixtureRestReader`, `FileFixturePagedRestReader` |
|
|
73
|
+
| `lineage` | Metadata and data-lineage graphs (dbt, OpenLineage, DataHub, ...) | `DbtManifestReader`, `OpenLineageReader` |
|
|
74
|
+
| `code_build` | Code, build, and SBOM dependency graphs (CycloneDX, SPDX, ...) | `CycloneDxSbomReader`, `SpdxSbomReader` |
|
|
75
|
+
| `saas_authz` | SaaS and authorization tuple stores (OpenFGA, SpiceDB, Microsoft Graph, ...) | `InProcessTupleStoreReader`, `PaginatedTupleStoreReader` |
|
|
76
|
+
| `agent_memory` | LLM agent memory and GraphRAG graphs (Letta, Zep, Mem0, ...) | `NetworkxMemoryReader`, `GraphWalkMemoryReader` |
|
|
77
|
+
| `citation_rest` | Citation and scientific REST APIs (Reactome, OpenAlex citations, ...) | `FileFixtureCitationReader`, `PaginatedCitationReader` |
|
|
78
|
+
|
|
79
|
+
See [`open_kgo/feature_groups/kg/README.md`](open_kgo/feature_groups/kg/README.md) for the full family map, the plugin anatomy, and what the prototype does and does not validate.
|
|
80
|
+
|
|
81
|
+
Install all KG extras with: `uv sync --extra kg-all`.
|
|
82
|
+
|
|
83
|
+
> **One feature per call.** KG readers dispatch a single feature per load: every
|
|
84
|
+
> reader rejects a multi-feature `FeatureSet` rather than silently labelling all
|
|
85
|
+
> rows with one feature name. Request features individually (one `Feature` per
|
|
86
|
+
> `mloda.run_all` slot) rather than batching `N` of them into a single reader call.
|
|
87
|
+
|
|
88
|
+
> **No-Docker testing policy.** Every connector test runs against rdflib, networkx, kuzu (embedded), or file fixtures. No Docker, no external services, no network calls.
|
|
89
|
+
|
|
90
|
+
## Semantic Fields — Layer 2
|
|
91
|
+
|
|
92
|
+
The connector families (Layer 1 validation) answer: *"is this traversal valid?"* — binary yes/no.
|
|
93
|
+
|
|
94
|
+
**SemanticField** (Layer 2) answers: *"how relevant is this entity to my query?"* — a continuous score, grounded in DC electrical circuit theory.
|
|
95
|
+
|
|
96
|
+
The knowledge graph is modelled as a resistor network. Ontology-declared relationship weights become conductances. A query is expressed as two anchor nodes — a **source** (high voltage) and a **sink** (low voltage, ground). The solver finds the electric potential at every entity via the conductance-weighted graph Laplacian, then scores each entity by the current it carries between source and sink.
|
|
97
|
+
|
|
98
|
+
**Why current?** Current only flows through entities that bridge *both* anchors. An entity connected to only one side floats to that side's extreme voltage — zero potential difference, zero current, automatically excluded. No relation-type filtering needed; the circuit topology enforces the AND constraint.
|
|
99
|
+
|
|
100
|
+
```python
|
|
101
|
+
from open_kgo.feature_groups.kg.ontology import SemanticField
|
|
102
|
+
|
|
103
|
+
# AND query: Sci-Fi films by Nolan
|
|
104
|
+
scores = SemanticField.compute_and(
|
|
105
|
+
namespace="metaqa",
|
|
106
|
+
edges=subgraph_edges, # 2-hop neighbourhood of both anchors
|
|
107
|
+
source={"Nolan": 1.0}, # high-voltage anchor
|
|
108
|
+
sink={"Sci-Fi": 0.0}, # ground
|
|
109
|
+
)
|
|
110
|
+
# → {"Interstellar": 0.394, "Inception": 0.312, "Dark Knight": 0.0, ...}
|
|
111
|
+
```
|
|
112
|
+
|
|
113
|
+
Relationship weights are declared in the ontology YAML and flow directly into the solver as conductances:
|
|
114
|
+
|
|
115
|
+
```yaml
|
|
116
|
+
relationships:
|
|
117
|
+
directed_by: { domain: Movie, range: Person, weight: 0.9 }
|
|
118
|
+
has_genre: { domain: Movie, range: Genre, weight: 0.7 }
|
|
119
|
+
has_tags: { domain: Movie, range: Tag, weight: 0.2 }
|
|
120
|
+
```
|
|
121
|
+
|
|
122
|
+
The solver is pure Python (no numpy) with an optional numba JIT kernel that gives a **70× speedup** at ~5 000-node subgraphs; it falls back silently when numba is absent.
|
|
123
|
+
|
|
124
|
+
| Layer | What it does | Status |
|
|
125
|
+
|---|---|---|
|
|
126
|
+
| L1 — OntologyRegistry | Binary valid/invalid edge checks, YAML-declared | Built |
|
|
127
|
+
| L2 — SemanticField | Continuous entity scoring via DC circuit model | Built |
|
|
128
|
+
| L3 — Discovery Engine | Guided multi-hop traversal by field strength | Planned |
|
|
129
|
+
|
|
130
|
+
Install: `uv sync --extra kg-semantic-field`
|
|
131
|
+
|
|
132
|
+
Full visual explainer: [`demo/semantic_field_explainer.html`](demo/semantic_field_explainer.html) — open in any browser, no server needed.
|
|
133
|
+
|
|
134
|
+
## Demos
|
|
135
|
+
|
|
136
|
+
Three marimo notebooks plus two evaluation harnesses live under `demo/`:
|
|
137
|
+
|
|
138
|
+
- `demo/demo_kg_connectors.py`: surface tour of all 9 families against the shipped fixtures.
|
|
139
|
+
- `demo/demo_kg_build_repo.py`: builds an RDF graph from this repo (filesystem `repo:contains` + Python `repo:imports`), serializes to Turtle, and runs five SPARQL queries through `RdfLibSparqlReader` via `mloda.run_all`.
|
|
140
|
+
- `demo/demo_kg_ontology.py`: walks the ontology layer end to end.
|
|
141
|
+
- `demo/demo_semantic_field.py`: SemanticField Layer 2 — interactive director + genre query against MetaQA, with live scoring.
|
|
142
|
+
- `demo/semantic_field_explainer.html`: full visual explainer for SemanticField — circuit diagram, layer stack, why EM, 1/2/multi-hop examples, test results. Open in any browser.
|
|
143
|
+
- `demo/eval_arch1_vs_arch2.py` and `demo/eval_qa_accuracy.py`: evaluation harnesses comparing plain traversal vs. ontology-guided traversal.
|
|
144
|
+
|
|
145
|
+
Install the demo extras and open any notebook:
|
|
146
|
+
|
|
147
|
+
```bash
|
|
148
|
+
uv sync --extra demo
|
|
149
|
+
marimo edit demo/demo_kg_connectors.py
|
|
150
|
+
```
|
|
151
|
+
|
|
152
|
+
Every demo runs offline against a small committed sample graph: no download,
|
|
153
|
+
no network, no external services.
|
|
154
|
+
|
|
155
|
+
## Data and acknowledgments
|
|
156
|
+
|
|
157
|
+
The ontology demo and the two evaluation harnesses run against a small
|
|
158
|
+
hand-authored sample of public movie facts (`demo/data/sample_kb.txt`) written
|
|
159
|
+
in the triple format of the MetaQA dataset (Zhang, Yuyu et al., "Variational
|
|
160
|
+
Reasoning for Question Answering with Knowledge Graph", AAAI 2018,
|
|
161
|
+
https://github.com/yuyuz/MetaQA). The sample is committed in this repo and is
|
|
162
|
+
not derived from the MetaQA dataset files. The notebooks call
|
|
163
|
+
`demo.data.ensure_data()` at startup, which builds the sample subgraph offline.
|
|
164
|
+
To run against the full MetaQA benchmark (licensed under
|
|
165
|
+
[CC BY 3.0](https://creativecommons.org/licenses/by/3.0/legalcode), not
|
|
166
|
+
redistributed here), see [`demo/data/README.md`](demo/data/README.md).
|
|
167
|
+
|
|
168
|
+
## Development setup
|
|
169
|
+
|
|
170
|
+
**Install uv** (if not already installed):
|
|
171
|
+
```bash
|
|
172
|
+
curl -LsSf https://astral.sh/uv/install.sh | sh
|
|
173
|
+
```
|
|
174
|
+
|
|
175
|
+
**Create virtual environment and install dependencies:**
|
|
176
|
+
```bash
|
|
177
|
+
uv venv
|
|
178
|
+
source .venv/bin/activate
|
|
179
|
+
uv sync --all-extras
|
|
180
|
+
```
|
|
181
|
+
|
|
182
|
+
**Run all checks with tox:**
|
|
183
|
+
```bash
|
|
184
|
+
uv tool install tox --with tox-uv
|
|
185
|
+
tox
|
|
186
|
+
```
|
|
187
|
+
|
|
188
|
+
### Run individual checks
|
|
189
|
+
|
|
190
|
+
```bash
|
|
191
|
+
pytest
|
|
192
|
+
ruff format --check --line-length 120 .
|
|
193
|
+
ruff check .
|
|
194
|
+
mypy --strict --ignore-missing-imports .
|
|
195
|
+
bandit -c pyproject.toml -r -q .
|
|
196
|
+
```
|
|
197
|
+
|
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198
|
+
## Related repositories and documentation
|
|
199
|
+
|
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200
|
+
- **[mloda](https://github.com/mloda-ai/mloda)**: The core library for open data access. Declaratively define what data you need, not how to get it. See [mloda.ai](https://mloda.ai) for an overview and business context and the [documentation](https://mloda-ai.github.io/mloda/) for detailed guides.
|
|
201
|
+
- **[mloda-registry](https://github.com/mloda-ai/mloda-registry)**: The central hub for discovering and sharing mloda plugins.
|
|
202
|
+
- **[Plugin development guides](https://github.com/mloda-ai/mloda-registry/tree/main/docs/guides/)**: How to build FeatureGroups, ComputeFrameworks, and Extenders.
|
|
203
|
+
- **[Claude Code skills](https://github.com/mloda-ai/mloda-registry/tree/main/.claude/skills/)**: Assisted plugin development for Claude Code users.
|
|
File without changes
|