test: add tests for biolink utils

__test__/integration/biolink.test.ts

@@ -1,72 +1,130 @@
-import { biolink } from '../../src/biolink';
+import { biolink } from "../../src/biolink";
 
-describe('Test BioLinkModel class', () => {
-  test('test reverse with correct predicate', () => {
-    const res = biolink.reverse('treats');
-    expect(res).toBe('treated_by');
+describe("Test BioLinkModel class", () => {
+  test("test reverse with correct predicate", () => {
+    const res = biolink.reverse("treats");
+    expect(res).toBe("treated_by");
   });
 
-  test('test reverse with correct predicate if it contains underscore', () => {
-    const res = biolink.reverse('treated_by');
-    expect(res).toBe('treats');
+  test("test reverse with correct predicate if it contains underscore", () => {
+    const res = biolink.reverse("treated_by");
+    expect(res).toBe("treats");
   });
 
-  test('test reverse with predicate having symmetric equal to true', () => {
-    const res = biolink.reverse('correlated_with');
-    expect(res).toBe('correlated_with');
+  test("test reverse with predicate having symmetric equal to true", () => {
+    const res = biolink.reverse("correlated_with");
+    expect(res).toBe("correlated_with");
   });
 
-  test('test predicate with no inverse property and symmetric not equal to true', () => {
-    const res = biolink.reverse('has_phenotype');
-    expect(res).toBe('phenotype_of');
+  test("test predicate with no inverse property and symmetric not equal to true", () => {
+    const res = biolink.reverse("has_phenotype");
+    expect(res).toBe("phenotype_of");
   });
 
-  test('test predicate not exist in biolink model', () => {
-    const res = biolink.reverse('haha');
+  test("test predicate not exist in biolink model", () => {
+    const res = biolink.reverse("haha");
     expect(res).toBeUndefined();
   });
 
-  test('if input not string, return undefined', () => {
+  test("if input not string, return undefined", () => {
     //@ts-expect-error: Explicitly testing for wrong type
-    const res = biolink.reverse(['dd']);
+    const res = biolink.reverse(["dd"]);
     expect(res).toBeUndefined();
   });
 
-  describe('Test getDescendants function', () => {
-    test('if input is in biolink model, return all its desendants and itself', () => {
-      const res = biolink.getDescendantClasses('MolecularEntity');
-      expect(res).toContain('SmallMolecule');
-      expect(res).toContain('NucleicAcidEntity');
-      expect(res).toContain('MolecularEntity');
+  describe("Test getAncestorClasses method", () => {
+    test("If input is in biolink model, return all its ancestors and itself", () => {
+      const res = biolink.getAncestorClasses("MolecularEntity");
+      expect(res).toContain("ChemicalEntity");
+      expect(res).toContain("NamedThing");
+      expect(res).toContain("MolecularEntity");
+    });
+
+    test("if input is in biolink model but doesn't have ancestors, return itself", () => {
+      const res = biolink.getAncestorClasses("Entity");
+      expect(res).toEqual(["Entity"]);
+    });
+
+    test("if input is not in biolink, return itself", () => {
+      const res = biolink.getAncestorClasses("Gene1");
+      expect(res).toEqual("Gene1");
+    });
+  });
+
+  describe("Test getAncestorPredicates function", () => {
+    test("if input is in biolink model, return all its ancestors and itself", () => {
+      const res = biolink.getAncestorPredicates("subclass_of");
+      expect(res).toContain("related_to_at_concept_level");
+      expect(res).toContain("related_to");
+      expect(res).toContain("subclass_of");
+    });
+
+    test("if input is in biolink model but doesn't have ancestors, return itself", () => {
+      const res = biolink.getAncestorPredicates("related_to");
+      expect(res).toEqual(["related_to"]);
+    });
+
+    test("if input is not in biolink, return itself", () => {
+      const res = biolink.getAncestorPredicates("Predicate1");
+      expect(res).toEqual("Predicate1");
+    });
+  });
+
+  describe("Test getDescendants function", () => {
+    test("if input is in biolink model, return all its desendants and itself", () => {
+      const res = biolink.getDescendantClasses("MolecularEntity");
+      expect(res).toContain("SmallMolecule");
+      expect(res).toContain("NucleicAcidEntity");
+      expect(res).toContain("MolecularEntity");
+    });
+
+    test("if input is in biolink model but doesn't have descendants, return itself", () => {
+      const res = biolink.getDescendantClasses("Gene");
+      expect(res).toEqual(["Gene"]);
+    });
+
+    test("if input is not in biolink, return itself", () => {
+      const res = biolink.getDescendantClasses("Gene1");
+      expect(res).toEqual("Gene1");
+    });
+  });
+
+  describe("Test getDescendantPredicates function", () => {
+    test("if input is in biolink model, return all its desendants and itself", () => {
+      const res = biolink.getDescendantPredicates("related_to");
+      expect(res).toContain("subclass_of");
+      expect(res).toContain("superclass_of");
+      expect(res).toContain("related_to");
     });
 
     test("if input is in biolink model but doesn't have descendants, return itself", () => {
-      const res = biolink.getDescendantClasses('Gene');
-      expect(res).toEqual(['Gene']);
+      const res = biolink.getDescendantPredicates("subclass_of");
+      expect(res).toEqual(["subclass_of"]);
     });
 
-    test('if input is not in biolink, return itself', () => {
-      const res = biolink.getDescendantClasses('Gene1');
-      expect(res).toEqual('Gene1');
+    test("if input is not in biolink, return itself", () => {
+      const res = biolink.getDescendantPredicates("Gene1");
+      expect(res).toEqual(["Gene1"]);
     });
   });
 
-  describe('Test getDescendantPredicates function', () => {
-    test('if input is in biolink model, return all its desendants and itself', () => {
-      const res = biolink.getDescendantPredicates('related_to');
-      expect(res).toContain('subclass_of');
-      expect(res).toContain('superclass_of');
-      expect(res).toContain('related_to');
+  describe("Test getDescendantQualifiers function", () => {
+    // TODO figure out what's going on with this
+    test.skip("if input is in biolink model, return all its desendants and itself", () => {
+      const res = biolink.getDescendantQualifiers("context_qualifier");
+      expect(res).toContain("object_context_qualifier");
+      expect(res).toContain("subject_context_qualifier");
+      expect(res).toContain("context_qualifier");
     });
 
     test("if input is in biolink model but doesn't have descendants, return itself", () => {
-      const res = biolink.getDescendantPredicates('subclass_of');
-      expect(res).toEqual(['subclass_of']);
+      const res = biolink.getDescendantQualifiers("object_context_qualifier");
+      expect(res).toEqual(["object_context_qualifier"]);
     });
 
-    test('if input is not in biolink, return itself', () => {
-      const res = biolink.getDescendantPredicates('Gene1');
-      expect(res).toEqual(['Gene1']);
+    test("if input is not in biolink, return itself", () => {
+      const res = biolink.getDescendantQualifiers("Qualifier1");
+      expect(res).toEqual(["Qualifier1"]);
     });
   });
 });