Replace CARO anatomical entity with Uberon. Leaving the CARO root typ…

…e for now. (#515)
geneontology · Jul 31, 2023 · 9976449 · 9976449
1 parent 9137fc7
commit 9976449
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Showing 2 changed files with 3 additions and 2 deletions.
diff --git a/minerva-core/src/main/java/org/geneontology/minerva/BlazegraphOntologyManager.java b/minerva-core/src/main/java/org/geneontology/minerva/BlazegraphOntologyManager.java
@@ -61,6 +61,7 @@ public class BlazegraphOntologyManager {
         root_types.add("http://purl.obolibrary.org/obo/UBERON_0001062"); //anatomical entity
         root_types.add("http://purl.obolibrary.org/obo/GO_0110165"); //cellular anatomical entity
         root_types.add("http://purl.obolibrary.org/obo/CARO_0000000"); // root root anatomical entity
+        root_types.add("http://purl.obolibrary.org/obo/UBERON_0001062"); // anatomical entity
         root_types.add("http://purl.obolibrary.org/obo/UBERON_0000105"); // life cycle stage
         root_types.add("http://purl.obolibrary.org/obo/PO_0009012"); // plant structure development stage
         root_types.add("http://purl.obolibrary.org/obo/GO_0044848"); // biological phase

diff --git a/minerva-core/src/test/java/org/geneontology/minerva/BlazegraphOntologyManagerTest.java b/minerva-core/src/test/java/org/geneontology/minerva/BlazegraphOntologyManagerTest.java
@@ -161,7 +161,7 @@ public void testGetSuperClasses() throws IOException {
         //GO native cell - used a lot in shex
         assertTrue("WBbt_0005753 not subclass of CL_0000003", supers.contains("http://purl.obolibrary.org/obo/CL_0000003"));
         //anatomy - also used a lot in shex
-        assertTrue("WBbt_0005753 not subclass of CARO_0000000", supers.contains("http://purl.obolibrary.org/obo/CARO_0000000"));
+        assertTrue("WBbt_0005753 not subclass of UBERON_0001062", supers.contains("http://purl.obolibrary.org/obo/UBERON_0001062"));
         //Cell component
         uri = "http://purl.obolibrary.org/obo/GO_0000776";
         supers = onto_repo.getAllSuperClasses(uri);
@@ -227,7 +227,7 @@ public void testGetUpperTypes() throws IOException {
         //GO native cell - used a lot in shex
         //assertTrue("WBbt_0005753 not subclass of CL_0000003", supers.contains("http://purl.obolibrary.org/obo/CL_0000003"));
         //anatomy - also used a lot in shex
-        assertTrue("WBbt_0005753 not subclass of CARO_0000000", supers.contains("http://purl.obolibrary.org/obo/CARO_0000000"));
+        assertTrue("WBbt_0005753 not subclass of UBERON_0001062", supers.contains("http://purl.obolibrary.org/obo/UBERON_0001062"));
         //Cell component
         supers = uri_roots.get(cc);
         assertTrue("GO_0000776 not subclass of GO_0110165 'cellular anatomical entity'", supers.contains("http://purl.obolibrary.org/obo/GO_0110165"));