feat: move biolink methods into utils

package.json

@@ -31,6 +31,7 @@
   "devDependencies": {
     "@commitlint/cli": "^18.2.0",
     "@commitlint/config-conventional": "^11.0.0",
+    "biolink-model": "workspace:../biolink-model",
     "@types/debug": "^4.1.10",
     "@types/jest": "^29.5.7",
     "@types/lodash": "^4.14.200",

src/biolink.ts

@@ -0,0 +1,74 @@
+import { BioLink } from 'biolink-model';
+import Debug from 'debug';
+const debug = Debug('bte:biothings-explorer-trapi:EdgeReverse');
+
+class BioLinkModel {
+  biolink: BioLink;
+  constructor() {
+    this.biolink = new BioLink();
+    this.biolink.loadSync();
+  }
+
+  reverse(predicate: string) {
+    if (typeof predicate === 'string') {
+      if (predicate in this.biolink.slotTree.objects) {
+        if (this.biolink.slotTree.objects[predicate].symmetric === true) {
+          return predicate;
+        }
+        return this.biolink.slotTree.objects[predicate].inverse;
+      }
+    }
+
+    return undefined;
+  }
+
+  getAncestorClasses(className: string): string | string[] {
+    if (className in this.biolink.classTree.objects) {
+      const ancestors = this.biolink.classTree.getAncestors(className).map((entity) => entity.name);
+      return [...ancestors, ...[className]];
+    }
+    return className;
+  }
+
+  getAncestorPredicates(predicate: string): string | string[] {
+    if (predicate in this.biolink.slotTree.objects) {
+      const ancestors = this.biolink.slotTree.getAncestors(predicate).map((entity) => entity.name);
+      return [...ancestors, ...[predicate]];
+    }
+    return predicate;
+  }
+
+  getDescendantClasses(className: string): string | string[] {
+    if (className in this.biolink.classTree.objects) {
+      const descendants = this.biolink.classTree.getDescendants(className).map((entity) => entity.name);
+      return [...descendants, ...[className]];
+    }
+    return className;
+  }
+
+  getDescendantPredicates(predicate: string): string[] {
+    if (predicate in this.biolink.slotTree.objects) {
+      const descendants = this.biolink.slotTree.getDescendants(predicate).map((entity) => entity.name);
+      return [...descendants, ...[predicate]];
+    }
+    return [predicate];
+  }
+
+  getDescendantQualifiers(qualifier: string): string[] {
+    try {
+      const descendants = this.biolink.enumTree.getDescendants(qualifier).map((entity) => entity.name);
+      return [...descendants, qualifier];
+    } catch (e) {
+      console.log('qual error', e);
+      return [qualifier];
+    }
+  }
+}
+
+// Freeze an instance to avoid multiple reloads
+const biolink = new BioLinkModel();
+Object.freeze(biolink);
+
+global.BIOLINK_VERSION = biolink.biolink.biolinkJSON.version;
+
+export { biolink };

src/index.ts

@@ -3,3 +3,4 @@ export * from "./log_entry";
 export * from "./telemetry";
 export * from "./misc";
 export * from "./redis-client";
+export * from "./biolink";

src/misc.ts

@@ -52,3 +52,4 @@ export function cartesian(a: number[][]): number[][] {
   }
   return o;
 }
+