feat: bump CL, EFO, HsapDv, MmusDv, MONDO, UBERON ontology versions f…

…or CxG schema 5.2.0 (#217)
chanzuckerberg · Sep 4, 2024 · 5bb43b9 · 5bb43b9
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diff --git 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
@@ -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
diff --git a/ontology-assets/EFO-ontology-v3.69.0.json.gz b/ontology-assets/EFO-ontology-v3.69.0.json.gz
diff --git a/ontology-assets/HsapDv-ontology-v2024-05-28.json.gz b/ontology-assets/HsapDv-ontology-v2024-05-28.json.gz
diff --git a/ontology-assets/MONDO-ontology-v2024-08-06.json.gz b/ontology-assets/MONDO-ontology-v2024-08-06.json.gz
diff --git a/ontology-assets/MmusDv-ontology-v2024-05-28.json.gz b/ontology-assets/MmusDv-ontology-v2024-05-28.json.gz
diff --git a/ontology-assets/UBERON-ontology-v2024-08-07.json.gz b/ontology-assets/UBERON-ontology-v2024-08-07.json.gz
diff --git 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": {