@apollo-annotation/common 0.3.6 → 0.3.8

package/dist/Check.d.ts

@@ -3,5 +3,6 @@ export declare abstract class Check {
     abstract name: string;
     abstract version: number;
     abstract causes: string[];
+    abstract isDefault: boolean;
     abstract checkFeature(feature: AnnotationFeatureSnapshot, getSequence: (start: number, end: number) => Promise<string>): Promise<CheckResultSnapshot[]>;
 }

package/dist/Check.js.map

@@ -1 +1 @@
-{"version":3,"file":"Check.js","sourceRoot":"","sources":["../src/Check.ts"],"names":[],"mappings":";;;AAKA,MAAsB,KAAK;CAS1B;AATD,sBASC"}
+{"version":3,"file":"Check.js","sourceRoot":"","sources":["../src/Check.ts"],"names":[],"mappings":";;;AAKA,MAAsB,KAAK;CAU1B;AAVD,sBAUC"}

package/dist/FeatureChange.d.ts

@@ -29,4 +29,13 @@ export declare abstract class FeatureChange extends AssemblySpecificChange {
      * @param featureIds -
      */
     generateNewIds(feature: Feature | AnnotationFeatureSnapshot, featureIds: string[]): AnnotationFeatureSnapshot;
+    addChild(parentFeature: Feature, child: AnnotationFeatureSnapshot): void;
+    /**
+     * Delete feature's subfeatures that match an ID and return the IDs of any
+     * sub-subfeatures that were deleted
+     * @param feature -
+     * @param featureIdToDelete -
+     * @returns - list of deleted feature IDs
+     */
+    findAndDeleteChildFeature(feature: Feature, featureIdToDelete: string): string[];
 }

package/dist/FeatureChange.js

@@ -84,6 +84,63 @@ class FeatureChange extends AssemblySpecificChange_1.AssemblySpecificChange {
             _id: newId,
         };
     }
+    addChild(parentFeature, child) {
+        var _a;
+        if (!((_a = parentFeature.attributes) === null || _a === void 0 ? void 0 : _a._id)) {
+            let { attributes } = parentFeature;
+            if (!attributes) {
+                attributes = {};
+            }
+            // eslint-disable-next-line @typescript-eslint/no-unsafe-assignment
+            attributes = {
+                _id: [parentFeature._id.toString()],
+                // eslint-disable-next-line unicorn/prefer-structured-clone
+                ...JSON.parse(JSON.stringify(attributes)),
+            };
+            parentFeature.attributes = attributes;
+        }
+        const { _id } = child;
+        if (!parentFeature.children) {
+            parentFeature.children = new Map();
+        }
+        parentFeature.children.set(_id, {
+            allIds: [],
+            ...child,
+            // eslint-disable-next-line @typescript-eslint/ban-ts-comment
+            // @ts-expect-error
+            _id,
+        });
+        // Child features should be sorted for click and drag of gene glyphs to work properly
+        parentFeature.children = new Map([...parentFeature.children.entries()].sort((a, b) => a[1].min - b[1].min));
+    }
+    /**
+     * Delete feature's subfeatures that match an ID and return the IDs of any
+     * sub-subfeatures that were deleted
+     * @param feature -
+     * @param featureIdToDelete -
+     * @returns - list of deleted feature IDs
+     */
+    findAndDeleteChildFeature(feature, featureIdToDelete) {
+        if (!feature.children) {
+            throw new Error(`Feature ${feature._id.toHexString()} has no children`);
+        }
+        const { _id, children } = feature;
+        const child = children.get(featureIdToDelete);
+        if (child) {
+            const deletedIds = this.getChildFeatureIds(child);
+            children.delete(featureIdToDelete);
+            return deletedIds;
+        }
+        for (const [, childFeature] of children) {
+            try {
+                return this.findAndDeleteChildFeature(childFeature, featureIdToDelete);
+            }
+            catch {
+                // pass
+            }
+        }
+        throw new Error(`Feature "${featureIdToDelete}" not found in ${_id.toHexString()}`);
+    }
 }
 exports.FeatureChange = FeatureChange;
 //# sourceMappingURL=FeatureChange.js.map

package/dist/FeatureChange.js.map

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