diff --git a/api/python/ontology-assets-version.txt b/api/python/ontology-assets-version.txt index ae9ae45..17254ae 100644 --- a/api/python/ontology-assets-version.txt +++ b/api/python/ontology-assets-version.txt @@ -1 +1 @@ -6c11b719f1b469696aac64b16ccde2428c0dfaa6 +7a9e06aa9e78ccef396c93e84362ff071b5bc085 diff --git a/api/python/src/cellxgene_ontology_guide/ontology_parser.py b/api/python/src/cellxgene_ontology_guide/ontology_parser.py index eb3c65b..cd83d17 100644 --- a/api/python/src/cellxgene_ontology_guide/ontology_parser.py +++ b/api/python/src/cellxgene_ontology_guide/ontology_parser.py @@ -581,8 +581,8 @@ def map_term_descriptions(self, term_ids: List[str]) -> Dict[str, Optional[str]] Example >>> from cellxgene_ontology_guide.ontology_parser import OntologyParser >>> ontology_parser = OntologyParser() - >>> ontology_parser.map_term_descriptions(["CL:0000005", "CL:0000006"]) - {'CL:0000005': 'Any fibroblast that is derived from the neural crest.', 'CL:0000006': None} + >>> ontology_parser.map_term_descriptions(["CL:0000005", "CL:0000146"]) + {'CL:0000005': 'Any fibroblast that is derived from the neural crest.', 'CL:0000146': None} :param term_ids: list of str ontology terms to fetch descriptions for :return: Dict[str, str] mapping term IDs to their respective descriptions diff --git a/ontology-assets/CL-ontology-v2024-08-16.json.gz b/ontology-assets/CL-ontology-v2024-08-16.json.gz new file mode 100644 index 0000000..998e1a0 Binary files /dev/null and b/ontology-assets/CL-ontology-v2024-08-16.json.gz differ diff --git a/ontology-assets/EFO-ontology-v3.69.0.json.gz b/ontology-assets/EFO-ontology-v3.69.0.json.gz new file mode 100644 index 0000000..e24fde9 Binary files /dev/null and b/ontology-assets/EFO-ontology-v3.69.0.json.gz differ diff --git a/ontology-assets/HsapDv-ontology-v2024-05-28.json.gz b/ontology-assets/HsapDv-ontology-v2024-05-28.json.gz new file mode 100644 index 0000000..f109db2 Binary files /dev/null and b/ontology-assets/HsapDv-ontology-v2024-05-28.json.gz differ diff --git a/ontology-assets/MONDO-ontology-v2024-08-06.json.gz b/ontology-assets/MONDO-ontology-v2024-08-06.json.gz new file mode 100644 index 0000000..b8fbe98 Binary files /dev/null and b/ontology-assets/MONDO-ontology-v2024-08-06.json.gz differ diff --git a/ontology-assets/MmusDv-ontology-v2024-05-28.json.gz b/ontology-assets/MmusDv-ontology-v2024-05-28.json.gz new file mode 100644 index 0000000..0c8562f Binary files /dev/null and b/ontology-assets/MmusDv-ontology-v2024-05-28.json.gz differ diff --git a/ontology-assets/UBERON-ontology-v2024-08-07.json.gz b/ontology-assets/UBERON-ontology-v2024-08-07.json.gz new file mode 100644 index 0000000..fa500c5 Binary files /dev/null and b/ontology-assets/UBERON-ontology-v2024-08-07.json.gz differ diff --git a/ontology-assets/ontology_info.json b/ontology-assets/ontology_info.json index b127c55..1031c2f 100644 --- a/ontology-assets/ontology_info.json +++ b/ontology-assets/ontology_info.json @@ -1,4 +1,53 @@ { + "5.2.0": { + "ontologies": { + "CL": { + "version": "v2024-08-16", + "source": "https://github.com/obophenotype/cell-ontology/releases/download", + "filename": "cl.owl" + }, + "EFO": { + "version": "v3.69.0", + "source": "https://github.com/EBISPOT/efo/releases/download", + "filename": "efo.owl" + }, + "HANCESTRO": { + "version": "3.0", + "source": "https://github.com/EBISPOT/hancestro/raw", + "filename": "hancestro.owl" + }, + "HsapDv": { + "version": "v2024-05-28", + "source": "https://github.com/obophenotype/developmental-stage-ontologies/releases/download", + "filename": "hsapdv.owl" + }, + "MONDO": { + "version": "v2024-08-06", + "source": "https://github.com/monarch-initiative/mondo/releases/download", + "filename": "mondo.owl" + }, + "MmusDv": { + "version": "v2024-05-28", + "source": "https://github.com/obophenotype/developmental-stage-ontologies/releases/download", + "filename": "mmusdv.owl" + }, + "NCBITaxon": { + "version": "v2023-06-20", + "source": "https://github.com/obophenotype/ncbitaxon/releases/download", + "filename": "ncbitaxon.owl.gz" + }, + "UBERON": { + "version": "v2024-08-07", + "source": "https://github.com/obophenotype/uberon/releases/download", + "filename": "uberon.owl" + }, + "PATO": { + "version": "v2023-05-18", + "source": "https://github.com/pato-ontology/pato/raw", + "filename": "pato.owl" + } + } + }, "5.1.0": { "ontologies": { "CL": { @@ -46,7 +95,8 @@ "source": "https://github.com/pato-ontology/pato/raw", "filename": "pato.owl" } - } + }, + "deprecated_on": "2024-08-19" }, "5.0.0": { "ontologies": {