├── .github ├── ISSUE_TEMPLATE │ └── new-term-request--ntr-.md └── workflows │ ├── docs.yml │ └── qc.yml ├── .gitignore ├── .travis.yml ├── CODE_OF_CONDUCT.md ├── CONTRIBUTING.md ├── LICENSE.txt ├── README.Md ├── docs ├── cite.md ├── contributing.md ├── diagrams │ └── foodon_curation.drawio ├── images │ ├── cihr-logo-250x156.jpg │ ├── foodon_hierarchy_800_wide.png │ └── funders.png ├── index.md └── odk-workflows │ ├── ContinuousIntegration.md │ ├── EditorsWorkflow.md │ ├── ManageDocumentation.md │ ├── ReleaseWorkflow.md │ ├── RepoManagement.md │ ├── RepositoryFileStructure.md │ ├── SettingUpDockerForODK.md │ ├── UpdateImports.md │ ├── components.md │ └── index.md ├── foodon-base.owl ├── foodon-full.owl ├── foodon-synonyms.tsv ├── foodon.owl ├── foodon_old.obo ├── foodon_siren.owl ├── issue_template.md ├── mkdocs.yaml ├── odk.sh └── src ├── metadata ├── README.md ├── foodon.md └── foodon.yml ├── ontology ├── Makefile ├── README-editors.md ├── README.md ├── catalog-v001.xml ├── foodon-edit.ofn ├── foodon-edit.properties ├── foodon-example.owl ├── foodon-idranges.owl ├── foodon-odk.yaml ├── foodon-synonyms.tsv ├── foodon-whole.tsv ├── foodon.Makefile ├── imports │ ├── NCBITaxon_slim_NTR.txt │ ├── animal │ │ ├── animal_parts.ofn │ │ ├── animal_parts.tsv │ │ ├── intermediate │ │ │ └── animal_template.tsv │ │ ├── menu │ │ │ ├── animal_parts.tsv │ │ │ ├── animals.tsv │ │ │ ├── animals_test.tsv │ │ │ ├── menu.py │ │ │ └── menus.tsv │ │ └── resources │ │ │ ├── id_integer.txt │ │ │ ├── id_mapping_table.tsv │ │ │ └── species_list.tsv │ ├── cdno.owl │ ├── cdno_delete_duplicate_labels.sparql │ ├── cdno_import.owl │ ├── cdno_ontofox.txt │ ├── chebi_import.owl │ ├── chebi_ontofox.txt │ ├── chebi_terms.txt │ ├── cob_import.owl │ ├── cob_ontofox.txt │ ├── cob_terms.txt │ ├── crossreference │ │ ├── agency_categories.owl │ │ ├── agency_categories_ontofox.txt │ │ ├── ancestro │ │ │ ├── ancestro_gaz_conversion.txt │ │ │ ├── ancestro_import.owl.txt │ │ │ └── gaz_conversion.py │ │ ├── snomed.md │ │ ├── snomed_dietary_regime.txt │ │ └── snomed_food.txt │ ├── deprecation_import.ofn │ ├── foodon_product_import.ofn │ ├── gaz_import.ofn │ ├── gaz_ontofox.txt │ ├── general_import.owl │ ├── general_ontofox.txt │ ├── general_terms.txt │ ├── langual │ │ ├── LanguaL2014.XML │ │ ├── LanguaL2017.XML │ │ ├── database.json │ │ ├── database.old.json │ │ ├── langual.py │ │ ├── langual_facet_a.json │ │ ├── langual_facet_a.old.json │ │ ├── lookup.old.txt │ │ ├── lookup.txt │ │ ├── notes.txt │ │ ├── template_chebi_ontofox.txt │ │ ├── template_gaz_ontofox.txt │ │ ├── template_import_header.txt │ │ ├── template_ncbitaxon_ontofox.txt │ │ └── template_uberon_ontofox.txt │ ├── langual_subsets │ │ ├── CAROTENO.TXT │ │ ├── CODEX.TXT │ │ ├── DBFSIREN.TXT │ │ ├── FRENCH.TXT │ │ ├── USDA Standard Reference 8.TXT │ │ ├── WHO.TXT │ │ ├── adjust_siren.py │ │ ├── db_dbfsiren.txt │ │ ├── subset.py │ │ ├── subset_basic.py │ │ ├── subset_caroteno_import.owl.txt │ │ ├── subset_french_import.owl.txt │ │ ├── subset_usda_sr8_import.owl.txt │ │ └── template_import_header.txt │ ├── ncbitaxon_import.owl │ ├── ncbitaxon_ontofox.txt │ ├── ncbitaxon_terms.txt │ ├── ons_import.owl │ ├── ons_ontofox.txt │ ├── product_type_import.ofn │ ├── robot │ │ ├── README.md │ │ ├── animal_parts.tsv │ │ ├── animals.tsv │ │ ├── dietary_supplement.tsv │ │ ├── fdc.tsv │ │ ├── food_process.tsv │ │ ├── meat_cuts.tsv │ │ ├── pasta.tsv │ │ ├── plant_parts.tsv │ │ ├── process.tsv │ │ ├── seafood.tsv │ │ ├── sssom_taxonomy.tsv │ │ └── wine.tsv │ ├── robot_animal_parts.ofn │ ├── robot_animals.ofn │ ├── robot_dietary_supplement.ofn │ ├── robot_fdc.owl │ ├── robot_food_process.ofn │ ├── robot_meat_cuts.ofn │ ├── robot_pasta.ofn │ ├── robot_plant_parts.ofn │ ├── robot_process.ofn │ ├── robot_seafood.ofn │ ├── robot_sssom_taxonomy.ofn │ ├── robot_wine.ofn │ └── siren_augment_codes.ofn ├── profile.txt ├── run.bat ├── run.sh ├── scripts │ ├── Remove_redundant_axioms.md │ ├── foodon-merged-modify.txt │ ├── foodon-merged-remediation.py │ ├── foodon_metadata_test.sparql │ ├── ncbitaxon_check.py │ ├── organism_parts.py │ ├── run_organism_parts.sh │ ├── util_obsoletion_update.py │ └── util_taxon_conversion.py ├── sparql │ ├── foodon-duplicate-labels.tsv │ ├── foodon_duplicate_labels.sparql │ ├── foodon_labels.sparql │ ├── foodon_labels_alts.sparql │ ├── foodon_mushroom.sparql │ ├── foodon_subdomains.sparql │ ├── foodon_synonyms.sparql │ ├── foodon_whole.sparql │ ├── test.sparql │ ├── wikidata_geo_administrative_territorial_entity.sparql │ ├── wikidata_geo_cities_towns.sparql │ ├── wikidata_geo_countries │ └── wikidata_geography.py └── tmp │ └── .gitkeep ├── scripts ├── run-command.sh ├── update_repo.sh └── validate_id_ranges.sc └── sparql ├── README.md ├── basic-report.sparql ├── class-count-by-prefix.sparql ├── dc-properties-violation.sparql ├── edges.sparql ├── foodon_terms.sparql ├── illegal-date-violation.sparql ├── inject-subset-declaration.ru ├── 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