@apollo-annotation/shared 0.3.6 → 0.3.7

package/dist/Changes/AddAssemblyAliasesChange.d.ts

@@ -0,0 +1,16 @@
+import { AssemblySpecificChange, type Change, type ChangeOptions, type ClientDataStore, type LocalGFF3DataStore, type SerializedAssemblySpecificChange, type ServerDataStore } from '@apollo-annotation/common';
+export interface SerializedAssemblyAliasesChange extends SerializedAssemblySpecificChange {
+    typeName: 'AddAssemblyAliasesChange';
+    aliases: string[];
+}
+export declare class AddAssemblyAliasesChange extends AssemblySpecificChange {
+    typeName: "AddAssemblyAliasesChange";
+    aliases: string[];
+    constructor(json: SerializedAssemblyAliasesChange, options?: ChangeOptions);
+    executeOnClient(clientDataStore: ClientDataStore): Promise<void>;
+    getInverse(): Change;
+    toJSON(): SerializedAssemblyAliasesChange;
+    executeOnServer(backend: ServerDataStore): Promise<void>;
+    executeOnLocalGFF3(_backend: LocalGFF3DataStore): Promise<unknown>;
+    get notification(): string;
+}

package/dist/Changes/AddAssemblyAliasesChange.js

@@ -0,0 +1,50 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.AddAssemblyAliasesChange = void 0;
+const common_1 = require("@apollo-annotation/common");
+const util_1 = require("@jbrowse/core/util");
+class AddAssemblyAliasesChange extends common_1.AssemblySpecificChange {
+    typeName = 'AddAssemblyAliasesChange';
+    aliases;
+    constructor(json, options) {
+        super(json, options);
+        this.aliases = json.aliases;
+    }
+    executeOnClient(clientDataStore) {
+        const { assemblyManager } = (0, util_1.getSession)(clientDataStore);
+        const assembly = assemblyManager.get(this.assembly);
+        if (!assembly) {
+            throw new Error(`assembly ${this.assembly} not found`);
+        }
+        // eslint-disable-next-line @typescript-eslint/no-unsafe-call, @typescript-eslint/no-unsafe-member-access
+        assembly.configuration.aliases.set(this.aliases);
+        return Promise.resolve();
+    }
+    getInverse() {
+        throw new Error('Method not implemented.');
+    }
+    toJSON() {
+        const { assembly, aliases, typeName } = this;
+        return { assembly, typeName, aliases };
+    }
+    async executeOnServer(backend) {
+        const { assemblyModel } = backend;
+        const { assembly, logger, aliases } = this;
+        logger.debug?.(`Updating assembly aliases for assembly: ${assembly}, aliases: ${JSON.stringify(aliases)}`);
+        const asm = await assemblyModel.findById(assembly);
+        if (!asm) {
+            throw new Error(`Assembly with ID ${assembly} not found`);
+        }
+        asm.aliases = aliases;
+        await asm.save();
+    }
+    executeOnLocalGFF3(_backend) {
+        throw new Error('Method not implemented.');
+    }
+    // eslint-disable-next-line @typescript-eslint/class-literal-property-style
+    get notification() {
+        return 'Assembly aliases have been added.';
+    }
+}
+exports.AddAssemblyAliasesChange = AddAssemblyAliasesChange;
+//# sourceMappingURL=AddAssemblyAliasesChange.js.map

package/dist/Changes/AddAssemblyAliasesChange.js.map

@@ -0,0 +1 @@
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package/dist/Changes/AddFeatureChange.d.ts

@@ -20,6 +20,7 @@ export declare class AddFeatureChange extends FeatureChange {
     typeName: "AddFeatureChange";
     changes: AddFeatureChangeDetails[];
     constructor(json: SerializedAddFeatureChange, options?: ChangeOptions);
+    get notification(): string;
     toJSON(): SerializedAddFeatureChange;
     /**
      * Applies the required change to database

package/dist/Changes/AddFeatureChange.js

@@ -3,7 +3,6 @@ Object.defineProperty(exports, "__esModule", { value: true });
 exports.AddFeatureChange = void 0;
 exports.isAddFeatureChange = isAddFeatureChange;
 /* eslint-disable @typescript-eslint/restrict-template-expressions */
-/* eslint-disable @typescript-eslint/no-unsafe-assignment */
 /* eslint-disable @typescript-eslint/require-await */
 /* eslint-disable @typescript-eslint/no-unnecessary-condition */
 const common_1 = require("@apollo-annotation/common");
@@ -15,6 +14,10 @@ class AddFeatureChange extends common_1.FeatureChange {
         super(json, options);
         this.changes = 'changes' in json ? json.changes : [json];
     }
+    // eslint-disable-next-line @typescript-eslint/class-literal-property-style
+    get notification() {
+        return 'Feature added successfully';
+    }
     toJSON() {
         const { assembly, changedIds, changes, typeName } = this;
         if (changes.length === 1) {
@@ -83,30 +86,7 @@ class AddFeatureChange extends common_1.FeatureChange {
                     if (!parentFeature) {
                         throw new Error(`Could not find feature with ID "${parentFeatureId}" in feature "${topLevelFeature._id}"`);
                     }
-                    if (!parentFeature.children) {
-                        parentFeature.children = new Map();
-                    }
-                    if (!parentFeature.attributes?._id) {
-                        let { attributes } = parentFeature;
-                        if (!attributes) {
-                            attributes = {};
-                        }
-                        attributes = {
-                            _id: [parentFeature._id.toString()],
-                            // eslint-disable-next-line unicorn/prefer-structured-clone
-                            ...JSON.parse(JSON.stringify(attributes)),
-                        };
-                        parentFeature.attributes = attributes;
-                    }
-                    parentFeature.children.set(_id, {
-                        allIds: [],
-                        ...addedFeature,
-                        // 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));
+                    this.addChild(parentFeature, addedFeature);
                     const childIds = this.getChildFeatureIds(addedFeature);
                     topLevelFeature.allIds.push(_id, ...childIds);
                     await topLevelFeature.save();

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@@ -1 +1 @@
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package/dist/Changes/DeleteFeatureChange.d.ts

@@ -19,6 +19,7 @@ export declare class DeleteFeatureChange extends FeatureChange {
     typeName: "DeleteFeatureChange";
     changes: DeleteFeatureChangeDetails[];
     constructor(json: SerializedDeleteFeatureChange, options?: ChangeOptions);
+    get notification(): string;
     toJSON(): SerializedDeleteFeatureChange;
     /**
      * Applies the required change to database
@@ -26,17 +27,17 @@ export declare class DeleteFeatureChange extends FeatureChange {
      * @returns
      */
     executeOnServer(backend: ServerDataStore): Promise<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[];
     executeOnLocalGFF3(_backend: LocalGFF3DataStore): Promise<void>;
     executeOnClient(dataStore: ClientDataStore): Promise<void>;
     getInverse(): AddFeatureChange;
 }
+/**
+ * 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
+ */
+export declare function findAndDeleteChildFeature(feature: Feature, featureIdToDelete: string, change: FeatureChange): string[];
 export declare function isDeleteFeatureChange(change: unknown): change is DeleteFeatureChange;
 export {};

package/dist/Changes/DeleteFeatureChange.js

@@ -1,6 +1,7 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.DeleteFeatureChange = void 0;
+exports.findAndDeleteChildFeature = findAndDeleteChildFeature;
 exports.isDeleteFeatureChange = isDeleteFeatureChange;
 /* eslint-disable @typescript-eslint/restrict-template-expressions */
 /* eslint-disable @typescript-eslint/require-await */
@@ -14,6 +15,10 @@ class DeleteFeatureChange extends common_1.FeatureChange {
         super(json, options);
         this.changes = 'changes' in json ? json.changes : [json];
     }
+    // eslint-disable-next-line @typescript-eslint/class-literal-property-style
+    get notification() {
+        return 'Feature deleted successfully';
+    }
     toJSON() {
         const { assembly, changedIds, changes, typeName } = this;
         if (changes.length === 1) {
@@ -52,7 +57,7 @@ class DeleteFeatureChange extends common_1.FeatureChange {
                 logger.debug?.(`Feature "${deletedFeature._id}" deleted from document "${featureDoc._id}". Whole document deleted.`);
                 continue;
             }
-            const deletedIds = this.findAndDeleteChildFeature(featureDoc, deletedFeature._id);
+            const deletedIds = findAndDeleteChildFeature(featureDoc, deletedFeature._id, this);
             deletedIds.push(deletedFeature._id);
             featureDoc.allIds = featureDoc.allIds.filter((id) => !deletedIds.includes(id));
             // Save updated document in Mongo
@@ -67,34 +72,6 @@ class DeleteFeatureChange extends common_1.FeatureChange {
             logger.debug?.(`Feature "${deletedFeature._id}" deleted from document "${featureDoc._id}"`);
         }
     }
-    /**
-     * 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 ${feature._id} has no children`);
-        }
-        const { _id, children } = feature;
-        const child = children.get(featureIdToDelete);
-        if (child) {
-            const deletedIds = this.getChildFeatureIds(child);
-            children.delete(featureIdToDelete);
-            return deletedIds;
-        }
-        for (const [, childFeature] of children) {
-            try {
-                return this.findAndDeleteChildFeature(childFeature, featureIdToDelete);
-            }
-            catch {
-                // pass
-            }
-        }
-        throw new Error(`Feature "${featureIdToDelete}" not found in ${_id}`);
-    }
     async executeOnLocalGFF3(_backend) {
         throw new Error('executeOnLocalGFF3 not implemented');
     }
@@ -123,9 +100,9 @@ class DeleteFeatureChange extends common_1.FeatureChange {
         const inverseChangedIds = [...changedIds].reverse();
         const inverseChanges = [...changes]
             .reverse()
-            .map((deleteFeatuerChange) => ({
-            addedFeature: deleteFeatuerChange.deletedFeature,
-            parentFeatureId: deleteFeatuerChange.parentFeatureId,
+            .map((deleteFeatureChange) => ({
+            addedFeature: deleteFeatureChange.deletedFeature,
+            parentFeatureId: deleteFeatureChange.parentFeatureId,
         }));
         logger.debug?.(`INVERSE CHANGE '${JSON.stringify(inverseChanges)}'`);
         return new AddFeatureChange_1.AddFeatureChange({
@@ -137,6 +114,34 @@ class DeleteFeatureChange extends common_1.FeatureChange {
     }
 }
 exports.DeleteFeatureChange = DeleteFeatureChange;
+/**
+ * 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
+ */
+function findAndDeleteChildFeature(feature, featureIdToDelete, change) {
+    if (!feature.children) {
+        throw new Error(`Feature ${feature._id} has no children`);
+    }
+    const { _id, children } = feature;
+    const child = children.get(featureIdToDelete);
+    if (child) {
+        const deletedIds = change.getChildFeatureIds(child);
+        children.delete(featureIdToDelete);
+        return deletedIds;
+    }
+    for (const [, childFeature] of children) {
+        try {
+            return findAndDeleteChildFeature(childFeature, featureIdToDelete, change);
+        }
+        catch {
+            // pass
+        }
+    }
+    throw new Error(`Feature "${featureIdToDelete}" not found in ${_id}`);
+}
 function isDeleteFeatureChange(change) {
     return change.typeName === 'DeleteFeatureChange';
 }

package/dist/Changes/DeleteFeatureChange.js.map

@@ -1 +1 @@
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package/dist/Changes/FeatureAttributeChange.d.ts

@@ -4,7 +4,8 @@ interface SerializedFeatureAttributeChangeBase extends SerializedFeatureChange {
 }
 export interface FeatureAttributeChangeDetails {
     featureId: string;
-    attributes: Record<string, string[]>;
+    oldAttributes: Record<string, string[]>;
+    newAttributes: Record<string, string[]>;
 }
 interface SerializedFeatureAttributeChangeSingle extends SerializedFeatureAttributeChangeBase, FeatureAttributeChangeDetails {
 }

package/dist/Changes/FeatureAttributeChange.js

@@ -16,8 +16,15 @@ class FeatureAttributeChange extends common_1.FeatureChange {
     toJSON() {
         const { assembly, changedIds, changes, typeName } = this;
         if (changes.length === 1) {
-            const [{ attributes, featureId }] = changes;
-            return { typeName, changedIds, assembly, featureId, attributes };
+            const [{ oldAttributes, newAttributes, featureId }] = changes;
+            return {
+                typeName,
+                changedIds,
+                assembly,
+                featureId,
+                oldAttributes,
+                newAttributes,
+            };
         }
         return { typeName, changedIds, assembly, changes };
     }
@@ -56,9 +63,9 @@ class FeatureAttributeChange extends common_1.FeatureChange {
         }
         // Let's update objects
         for (const [idx, change] of changes.entries()) {
-            const { attributes } = change;
+            const { newAttributes } = change;
             const { feature, topLevelFeature } = featuresForChanges[idx];
-            feature.attributes = attributes;
+            feature.attributes = newAttributes;
             if (topLevelFeature._id.equals(feature._id)) {
                 topLevelFeature.markModified('attributes'); // Mark as modified. Without this save() -method is not updating data in database
             }
@@ -87,7 +94,7 @@ class FeatureAttributeChange extends common_1.FeatureChange {
             if (!feature) {
                 throw new Error(`Could not find feature with identifier "${changedId}"`);
             }
-            feature.setAttributes(new Map(Object.entries(this.changes[idx].attributes)));
+            feature.setAttributes(new Map(Object.entries(this.changes[idx].newAttributes)));
         }
     }
     getInverse() {
@@ -95,7 +102,8 @@ class FeatureAttributeChange extends common_1.FeatureChange {
         const inverseChangedIds = [...changedIds].reverse();
         const inverseChanges = [...changes].reverse().map((oneChange) => ({
             featureId: oneChange.featureId,
-            attributes: oneChange.attributes,
+            oldAttributes: oneChange.newAttributes,
+            newAttributes: oneChange.oldAttributes,
         }));
         return new FeatureAttributeChange({
             changedIds: inverseChangedIds,

package/dist/Changes/FeatureAttributeChange.js.map

@@ -1 +1 @@
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package/dist/Changes/ImportJBrowseConfigChange.d.ts

@@ -18,6 +18,9 @@ interface JBrowseInternetAccount {
 }
 export interface JBrowseConfig {
     assemblies?: JBrowseAssembly[];
+    configuration?: {
+        ApolloPlugin?: Record<string, unknown>;
+    };
     tracks?: JBrowseTrack[];
     plugins?: JBrowsePlugin[];
     internetAccounts?: JBrowseInternetAccount[];

package/dist/Changes/ImportJBrowseConfigChange.js

@@ -5,23 +5,27 @@ exports.filterJBrowseConfig = filterJBrowseConfig;
 /* eslint-disable @typescript-eslint/require-await */
 const common_1 = require("@apollo-annotation/common");
 function filterJBrowseConfig(config) {
-    const { __v, _id, assemblies, internetAccounts, plugins, tracks, ...rest } = config;
-    const filteredAssemblies = assemblies?.filter((a) => a.sequence.adapter.type !== 'ApolloSequenceAdapter');
-    const filteredTracks = tracks?.filter((t) => t.type !== 'ApolloTrack');
-    const filteredPlugins = plugins?.filter((p) => p.name !== 'Apollo');
-    const filteredInternetAccounts = internetAccounts?.filter((i) => i.type !== 'ApolloInternetAccount');
+    const { __v, _id, assemblies, configuration, internetAccounts, plugins, tracks, ...rest } = config;
+    // Need to make sure that configuration.ApolloPlugin.hasRole isn't set
     const filteredConfig = rest;
-    if (filteredAssemblies) {
-        filteredConfig.assemblies = filteredAssemblies;
+    if (assemblies) {
+        filteredConfig.assemblies = assemblies.filter((a) => a.sequence.adapter.type !== 'ApolloSequenceAdapter');
     }
-    if (filteredTracks) {
-        filteredConfig.tracks = filteredTracks;
+    if (configuration?.ApolloPlugin?.hasRole) {
+        const { hasRole, ...apolloPluginRest } = configuration.ApolloPlugin;
+        filteredConfig.configuration = {
+            ...configuration,
+            ApolloPlugin: apolloPluginRest,
+        };
     }
-    if (filteredPlugins) {
-        filteredConfig.plugins = filteredPlugins;
+    if (internetAccounts) {
+        filteredConfig.internetAccounts = internetAccounts.filter((i) => i.type !== 'ApolloInternetAccount');
     }
-    if (filteredInternetAccounts) {
-        filteredConfig.internetAccounts = filteredInternetAccounts;
+    if (plugins) {
+        filteredConfig.plugins = plugins.filter((p) => p.name !== 'Apollo');
+    }
+    if (tracks) {
+        filteredConfig.trackss = tracks.filter((t) => t.type !== 'ApolloTrack');
     }
     return filteredConfig;
 }

package/dist/Changes/ImportJBrowseConfigChange.js.map

@@ -1 +1 @@
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+{"version":3,"file":"ImportJBrowseConfigChange.js","sourceRoot":"","sources":["../../src/Changes/ImportJBrowseConfigChange.ts"],"names":[],"mappings":";;;AA2CA,kDAqCC;AAhFD,qDAAqD;AACrD,sDAMkC;AAoClC,SAAgB,mBAAmB,CAAC,MAAqB;IACvD,MAAM,EACJ,GAAG,EACH,GAAG,EACH,UAAU,EACV,aAAa,EACb,gBAAgB,EAChB,OAAO,EACP,MAAM,EACN,GAAG,IAAI,EACR,GAAG,MAAM,CAAA;IACV,sEAAsE;IACtE,MAAM,cAAc,GAAG,IAAqB,CAAA;IAC5C,IAAI,UAAU,EAAE,CAAC;QACf,cAAc,CAAC,UAAU,GAAG,UAAU,CAAC,MAAM,CAC3C,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,QAAQ,CAAC,OAAO,CAAC,IAAI,KAAK,uBAAuB,CAC3D,CAAA;IACH,CAAC;IACD,IAAI,aAAa,EAAE,YAAY,EAAE,OAAO,EAAE,CAAC;QACzC,MAAM,EAAE,OAAO,EAAE,GAAG,gBAAgB,EAAE,GAAG,aAAa,CAAC,YAAY,CAAA;QACnE,cAAc,CAAC,aAAa,GAAG;YAC7B,GAAG,aAAa;YAChB,YAAY,EAAE,gBAAgB;SAC/B,CAAA;IACH,CAAC;IACD,IAAI,gBAAgB,EAAE,CAAC;QACrB,cAAc,CAAC,gBAAgB,GAAG,gBAAgB,CAAC,MAAM,CACvD,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,IAAI,KAAK,uBAAuB,CAC1C,CAAA;IACH,CAAC;IACD,IAAI,OAAO,EAAE,CAAC;QACZ,cAAc,CAAC,OAAO,GAAG,OAAO,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,IAAI,KAAK,QAAQ,CAAC,CAAA;IACrE,CAAC;IACD,IAAI,MAAM,EAAE,CAAC;QACX,cAAc,CAAC,OAAO,GAAG,MAAM,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,IAAI,KAAK,aAAa,CAAC,CAAA;IACzE,CAAC;IACD,OAAO,cAAc,CAAA;AACvB,CAAC;AAED,MAAa,yBAA0B,SAAQ,eAAM;IACnD,QAAQ,GAAG,2BAAoC,CAAA;IAC/C,gBAAgB,CAAgB;IAChC,gBAAgB,CAAgB;IAEhC,YACE,IAAyC,EACzC,OAAuB;QAEvB,KAAK,CAAC,IAAI,EAAE,OAAO,CAAC,CAAA;QACpB,IAAI,CAAC,gBAAgB,GAAG,IAAI,CAAC,gBAAgB,CAAA;QAC7C,IAAI,CAAC,gBAAgB,GAAG,IAAI,CAAC,gBAAgB,CAAA;IAC/C,CAAC;IAED,MAAM;QACJ,MAAM,EAAE,gBAAgB,EAAE,gBAAgB,EAAE,QAAQ,EAAE,GAAG,IAAI,CAAA;QAC7D,OAAO,EAAE,QAAQ,EAAE,gBAAgB,EAAE,gBAAgB,EAAE,CAAA;IACzD,CAAC;IAED,KAAK,CAAC,eAAe,CAAC,OAAwB;QAC5C,MAAM,EAAE,kBAAkB,EAAE,GAAG,OAAO,CAAA;QACtC,MAAM,EAAE,MAAM,EAAE,gBAAgB,EAAE,GAAG,IAAI,CAAA;QACzC,MAAM,kBAAkB,CAAC,UAAU,EAAE,CAAA;QACrC,IAAI,CAAC,gBAAgB,EAAE,CAAC;YACtB,OAAM;QACR,CAAC;QACD,MAAM,cAAc,GAAG,mBAAmB,CAAC,gBAAgB,CAAC,CAAA;QAC5D,MAAM,kBAAkB,CAAC,MAAM,CAAC,cAAc,CAAC,CAAA;QAC/C,MAAM,CAAC,KAAK,EAAE,CAAC,2BAA2B,CAAC,CAAA;IAC7C,CAAC;IAED,KAAK,CAAC,kBAAkB,CAAC,QAA4B;QACnD,MAAM,IAAI,KAAK,CAAC,oCAAoC,CAAC,CAAA;IACvD,CAAC;IAED,gEAAgE;IAChE,KAAK,CAAC,eAAe,CAAC,UAA2B,IAAG,CAAC;IAErD,UAAU;QACR,MAAM,EAAE,MAAM,EAAE,gBAAgB,EAAE,gBAAgB,EAAE,GAAG,IAAI,CAAA;QAC3D,OAAO,IAAI,yBAAyB,CAClC;YACE,QAAQ,EAAE,2BAA2B;YACrC,gBAAgB,EAAE,gBAAgB;YAClC,gBAAgB,EAAE,gBAAgB;SACnC,EACD,EAAE,MAAM,EAAE,CACX,CAAA;IACH,CAAC;CACF;AAjDD,8DAiDC"}

package/dist/Changes/LocationEndChange.js

@@ -29,15 +29,31 @@ class LocationEndChange extends common_1.FeatureChange {
     async executeOnServer(backend) {
         const { featureModel, session } = backend;
         const { changes, logger } = this;
-        const featuresForChanges = [];
         // Let's first check that all features are found and those old values match with expected ones. We do this just to be sure that all changes can be done.
+        const topLevelFeatures = [];
         for (const change of changes) {
-            const { featureId, oldEnd } = change;
-            // Search correct feature
-            const topLevelFeature = await featureModel
-                .findOne({ allIds: featureId })
-                .session(session)
-                .exec();
+            const { featureId, oldEnd, newEnd } = change;
+            // See if we already have top-level feature for this feature
+            let topLevelFeature;
+            let feature;
+            for (const tlv of topLevelFeatures) {
+                const childFeature = this.getFeatureFromId(tlv, featureId);
+                if (childFeature) {
+                    topLevelFeature = tlv;
+                    feature = childFeature;
+                    break;
+                }
+            }
+            if (!topLevelFeature) {
+                // Don't already have top-level feature, so let's query it
+                topLevelFeature = await featureModel
+                    .findOne({ allIds: featureId })
+                    .session(session)
+                    .exec();
+                if (topLevelFeature) {
+                    topLevelFeatures.push(topLevelFeature);
+                }
+            }
             if (!topLevelFeature) {
                 const errMsg = `*** ERROR: The following featureId was not found in database ='${featureId}'`;
                 logger.error(errMsg);
@@ -45,35 +61,20 @@ class LocationEndChange extends common_1.FeatureChange {
                 // throw new NotFoundException(errMsg)  -- This is causing runtime error because Exception comes from @nestjs/common!!!
             }
             logger.debug?.(`*** TOP level feature found: ${JSON.stringify(topLevelFeature)}`);
-            const foundFeature = this.getFeatureFromId(topLevelFeature, featureId);
-            if (!foundFeature) {
+            if (!feature) {
+                feature = this.getFeatureFromId(topLevelFeature, featureId);
+            }
+            if (!feature) {
                 const errMsg = 'ERROR when searching feature by featureId';
                 logger.error(errMsg);
                 throw new Error(errMsg);
             }
-            logger.debug?.(`*** Found feature: ${JSON.stringify(foundFeature)}`);
-            if (foundFeature.max === oldEnd) {
-                featuresForChanges.push({ feature: foundFeature, topLevelFeature });
-            }
-            else {
-                if (foundFeature.children) {
-                    for (const [, childFeature] of foundFeature.children) {
-                        if (childFeature.max === oldEnd) {
-                            logger.debug?.(`*************** UPDATE CHILD FEATURE ID= ${featureId}, CHILD: ${JSON.stringify(childFeature)}`);
-                            featuresForChanges.push({
-                                feature: childFeature,
-                                topLevelFeature,
-                            });
-                            break;
-                        }
-                    }
-                }
+            logger.debug?.(`*** Found feature: ${JSON.stringify(feature)}`);
+            if (feature.max !== oldEnd) {
+                const errMsg = 'Expected previous max does not match';
+                logger.error(errMsg);
+                throw new Error(errMsg);
             }
-        }
-        // Let's update objects.
-        for (const [idx, change] of changes.entries()) {
-            const { newEnd } = change;
-            const { feature, topLevelFeature } = featuresForChanges[idx];
             feature.max = newEnd;
             if (topLevelFeature._id.equals(feature._id)) {
                 topLevelFeature.markModified('end'); // Mark as modified. Without this save() -method is not updating data in database
@@ -81,14 +82,15 @@ class LocationEndChange extends common_1.FeatureChange {
             else {
                 topLevelFeature.markModified('children'); // Mark as modified. Without this save() -method is not updating data in database
             }
+        }
+        for (const tlv of topLevelFeatures) {
             try {
-                await topLevelFeature.save();
+                await tlv.save();
             }
             catch (error) {
                 logger.debug?.(`*** FAILED: ${error}`);
                 throw error;
             }
-            logger.debug?.(`*** Object updated in Mongo. New object: ${JSON.stringify(topLevelFeature)}`);
         }
     }
     async executeOnLocalGFF3(_backend) {
@@ -98,12 +100,13 @@ class LocationEndChange extends common_1.FeatureChange {
         if (!dataStore) {
             throw new Error('No data store');
         }
-        for (const [idx, changedId] of this.changedIds.entries()) {
-            const feature = dataStore.getFeature(changedId);
+        for (const change of this.changes) {
+            const { featureId, newEnd } = change;
+            const feature = dataStore.getFeature(featureId);
             if (!feature) {
-                throw new Error(`Could not find feature with identifier "${changedId}"`);
+                throw new Error(`Could not find feature with identifier "${featureId}"`);
             }
-            feature.setMax(this.changes[idx].newEnd);
+            feature.setMax(newEnd);
         }
     }
     getInverse() {

package/dist/Changes/LocationEndChange.js.map

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