@apollo-annotation/shared 0.3.12 → 1.0.0

package/dist/Changes/AddAssemblyFromFileChange.js

@@ -1,6 +1,5 @@
-import { BgzipIndexedFasta } from '@gmod/indexedfasta';
-import { FromFileBaseChange } from './FromFileBaseChange.js';
-export class AddAssemblyFromFileChange extends FromFileBaseChange {
+import { AssemblySpecificChange, } from '@apollo-annotation/common';
+export class AddAssemblyFromFileChange extends AssemblySpecificChange {
     typeName = 'AddAssemblyFromFileChange';
     changes;
     constructor(json, options) {
@@ -18,122 +17,6 @@ export class AddAssemblyFromFileChange extends FromFileBaseChange {
         }
         return { typeName, assembly, changes };
     }
-    /**
-     * Applies the required change to database
-     * @param backend - parameters from backend
-     * @returns
-     */
-    async executeOnServer(backend) {
-        const { changes } = this;
-        for (const change of changes) {
-            const { assemblyName, fileIds } = change;
-            await ('gzi' in fileIds
-                ? this.executeOnServerIndexed(backend, assemblyName, fileIds)
-                : this.executeOnServerFasta(backend, assemblyName, fileIds.fa));
-        }
-    }
-    async executeOnServerIndexed(backend, assemblyName, fileIds) {
-        const { CHUNK_SIZE } = process.env;
-        const customChunkSize = CHUNK_SIZE && Number(CHUNK_SIZE);
-        const { FILE_UPLOAD_FOLDER } = process.env;
-        if (!FILE_UPLOAD_FOLDER) {
-            throw new Error('No FILE_UPLOAD_FOLDER found in .env file');
-        }
-        const { fa: faId, fai: faiId, gzi: gziId } = fileIds;
-        const { assemblyModel, checkModel, fileModel, filesService, refSeqModel, user, } = backend;
-        const faDoc = await fileModel.findById(faId);
-        const faChecksum = faDoc?.checksum;
-        if (!faChecksum) {
-            throw new Error(`No checksum for file document ${faDoc?.id}`);
-        }
-        const faiDoc = await fileModel.findById(faiId);
-        const faiChecksum = faiDoc?.checksum;
-        if (!faiChecksum) {
-            throw new Error(`No checksum for file document ${faiDoc?.id}`);
-        }
-        const gziDoc = await fileModel.findById(gziId);
-        const gziChecksum = gziDoc?.checksum;
-        if (!gziChecksum) {
-            throw new Error(`No checksum for file document ${gziDoc?.id}`);
-        }
-        const fasta = filesService.getFileHandle(faDoc);
-        const fai = filesService.getFileHandle(faiDoc);
-        const gzi = filesService.getFileHandle(gziDoc);
-        const sequenceAdapter = new BgzipIndexedFasta({ fasta, fai, gzi });
-        const allSequenceSizes = await sequenceAdapter.getSequenceSizes();
-        await Promise.all([fasta.close(), fai.close(), gzi.close()]);
-        const assemblyDoc = await assemblyModel
-            .findOne({ name: assemblyName })
-            .exec();
-        if (assemblyDoc) {
-            throw new Error(`Assembly "${assemblyName}" already exists`);
-        }
-        const checkDocs = await checkModel.find({ isDefault: true }).exec();
-        const checks = checkDocs.map((checkDoc) => checkDoc._id.toHexString());
-        const [newAssemblyDoc] = await assemblyModel.create([
-            {
-                _id: this.assembly,
-                name: assemblyName,
-                user,
-                status: -1,
-                fileIds,
-                checks,
-            },
-        ]);
-        this.logger.debug?.(`Added new assembly "${assemblyName}", docId "${newAssemblyDoc._id}"`);
-        for (const sequenceName in allSequenceSizes) {
-            const [newRefSeqDoc] = await refSeqModel.create([
-                {
-                    name: sequenceName,
-                    assembly: newAssemblyDoc._id,
-                    length: allSequenceSizes[sequenceName],
-                    ...(customChunkSize ? { chunkSize: customChunkSize } : null),
-                    user,
-                    status: -1,
-                },
-            ]);
-            this.logger.debug?.(`Added new refSeq "${sequenceName}", docId "${newRefSeqDoc._id}"`);
-        }
-    }
-    async executeOnServerFasta(backend, assemblyName, fileId) {
-        const { assemblyModel, checkModel, fileModel, user } = backend;
-        // Get file checksum
-        const fileDoc = await fileModel.findById(fileId).exec();
-        if (!fileDoc) {
-            throw new Error(`File "${fileId}" not found in Mongo`);
-        }
-        this.logger.debug?.(`FileId "${fileId}", checksum "${fileDoc.checksum}"`);
-        // Check and add new assembly
-        const assemblyDoc = await assemblyModel
-            .findOne({ name: assemblyName })
-            .exec();
-        if (assemblyDoc) {
-            throw new Error(`Assembly "${assemblyName}" already exists`);
-        }
-        const checkDocs = await checkModel.find({ default: true }).exec();
-        const checks = checkDocs.map((checkDoc) => checkDoc._id.toHexString());
-        // Add assembly
-        const [newAssemblyDoc] = await assemblyModel.create([
-            {
-                _id: this.assembly,
-                name: assemblyName,
-                user,
-                status: -1,
-                fileIds: { fa: fileId },
-                checks,
-            },
-        ]);
-        this.logger.debug?.(`Added new assembly "${assemblyName}", docId "${newAssemblyDoc._id}"`);
-        this.logger.debug?.(`File type: "${fileDoc.type}", assemblyId: "${newAssemblyDoc._id}"`);
-        // Add refSeqs
-        // We cannot use Mongo 'session' / transaction here because Mongo has 16 MB limit for transaction
-        await this.addRefSeqIntoDb(fileDoc, newAssemblyDoc._id.toString(), backend);
-    }
-    async executeOnLocalGFF3(_backend) {
-        throw new Error('executeOnLocalGFF3 not implemented');
-    }
-    // eslint-disable-next-line @typescript-eslint/no-empty-function
-    async executeOnClient(_dataStore) { }
     getInverse() {
         const { assembly, changes, logger, typeName } = this;
         return new AddAssemblyFromFileChange({ typeName, changes, assembly }, { logger });

package/dist/Changes/AddAssemblyFromFileChange.js.map

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package/dist/Changes/AddFeaturesFromFileChange.d.ts

@@ -1,5 +1,4 @@
-import type { ChangeOptions, ClientDataStore, LocalGFF3DataStore, SerializedAssemblySpecificChange, ServerDataStore } from '@apollo-annotation/common';
-import { FromFileBaseChange } from './FromFileBaseChange.js';
+import { AssemblySpecificChange, type ChangeOptions, type SerializedAssemblySpecificChange } from '@apollo-annotation/common';
 export interface SerializedAddFeaturesFromFileChangeBase extends SerializedAssemblySpecificChange {
     typeName: 'AddFeaturesFromFileChange';
     deleteExistingFeatures?: boolean;
@@ -17,21 +16,13 @@ export interface SerializedAddFeaturesFromFileChangeMultiple extends SerializedA
     changes: AddFeaturesFromFileChangeDetails[];
 }
 export type SerializedAddFeaturesFromFileChange = SerializedAddFeaturesFromFileChangeSingle | SerializedAddFeaturesFromFileChangeMultiple;
-export declare class AddFeaturesFromFileChange extends FromFileBaseChange {
+export declare class AddFeaturesFromFileChange extends AssemblySpecificChange {
     typeName: "AddFeaturesFromFileChange";
     changes: AddFeaturesFromFileChangeDetails[];
     deleteExistingFeatures: boolean;
     constructor(json: SerializedAddFeaturesFromFileChange, options?: ChangeOptions);
     get notification(): string;
     toJSON(): SerializedAddFeaturesFromFileChange;
-    /**
-     * Applies the required change to database
-     * @param backend - parameters from backend
-     * @returns
-     */
-    executeOnServer(backend: ServerDataStore): Promise<void>;
-    executeOnLocalGFF3(_backend: LocalGFF3DataStore): Promise<void>;
-    executeOnClient(_dataStore: ClientDataStore): Promise<void>;
     getInverse(): AddFeaturesFromFileChange;
 }
 //# sourceMappingURL=AddFeaturesFromFileChange.d.ts.map

package/dist/Changes/AddFeaturesFromFileChange.d.ts.map

@@ -1 +1 @@
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package/dist/Changes/AddFeaturesFromFileChange.js

@@ -1,5 +1,5 @@
-import { FromFileBaseChange } from './FromFileBaseChange.js';
-export class AddFeaturesFromFileChange extends FromFileBaseChange {
+import { AssemblySpecificChange, } from '@apollo-annotation/common';
+export class AddFeaturesFromFileChange extends AssemblySpecificChange {
     typeName = 'AddFeaturesFromFileChange';
     changes;
     deleteExistingFeatures = false;
@@ -20,70 +20,6 @@ export class AddFeaturesFromFileChange extends FromFileBaseChange {
         }
         return { typeName, assembly, changes, deleteExistingFeatures };
     }
-    /**
-     * Applies the required change to database
-     * @param backend - parameters from backend
-     * @returns
-     */
-    async executeOnServer(backend) {
-        const { fileModel, filesService } = backend;
-        const { changes, deleteExistingFeatures, logger } = this;
-        if (deleteExistingFeatures) {
-            await this.removeExistingFeatures(backend);
-        }
-        for (const change of changes) {
-            const { fileId, parseOptions } = change;
-            const { FILE_UPLOAD_FOLDER } = process.env;
-            if (!FILE_UPLOAD_FOLDER) {
-                throw new Error('No FILE_UPLOAD_FOLDER found in .env file');
-            }
-            // Get file checksum
-            const fileDoc = await fileModel.findById(fileId).exec();
-            if (!fileDoc) {
-                throw new Error(`File "${fileId}" not found in Mongo`);
-            }
-            logger.debug?.(`FileId "${fileId}", checksum "${fileDoc.checksum}"`);
-            let errorCount = 0;
-            // eslint-disable-next-line unicorn/consistent-function-scoping
-            const errorLogger = (error) => {
-                if (errorCount <= 99) {
-                    logger.warn('Error parsing or adding feature');
-                    logger.warn(error);
-                    if (errorCount === 99) {
-                        logger.warn('Reached 100 feature errors, omitting further warnings from log');
-                    }
-                }
-                errorCount++;
-            };
-            // Read data from compressed file and parse the content
-            const { bufferSize = 10_000, strict = true } = parseOptions ?? {};
-            const featureStream = filesService.parseGFF3(filesService.getFileStream(fileDoc), { bufferSize, errorCallback: strict ? undefined : errorLogger });
-            let featureCount = 0;
-            for await (const gff3Feature of featureStream) {
-                // Add new feature into database
-                try {
-                    await this.addFeatureIntoDb(gff3Feature, backend);
-                }
-                catch (error) {
-                    // if the first feature is an error, assume the file isn't valid and throw
-                    if (strict || featureCount === 0) {
-                        throw error;
-                    }
-                    errorLogger(error);
-                }
-                featureCount++;
-                if (featureCount % 1000 === 0) {
-                    logger.debug?.(`Processed ${featureCount} features`);
-                }
-            }
-        }
-        logger.debug?.('New features added into database!');
-    }
-    async executeOnLocalGFF3(_backend) {
-        throw new Error('executeOnLocalGFF3 not implemented');
-    }
-    // eslint-disable-next-line @typescript-eslint/no-empty-function
-    async executeOnClient(_dataStore) { }
     getInverse() {
         const { assembly, changes, logger, typeName } = this;
         return new AddFeaturesFromFileChange({ typeName, changes, assembly }, { logger });

package/dist/Changes/AddFeaturesFromFileChange.js.map

@@ -1 +1 @@
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+{"version":3,"file":"AddFeaturesFromFileChange.js","sourceRoot":"","sources":["../../src/Changes/AddFeaturesFromFileChange.ts"],"names":[],"mappings":"AAAA,OAAO,EACL,sBAAsB,GAGvB,MAAM,2BAA2B,CAAA;AA0BlC,MAAM,OAAO,yBAA0B,SAAQ,sBAAsB;IACnE,QAAQ,GAAG,2BAAoC,CAAA;IAC/C,OAAO,CAAoC;IAC3C,sBAAsB,GAAG,KAAK,CAAA;IAE9B,YACE,IAAyC,EACzC,OAAuB;QAEvB,KAAK,CAAC,IAAI,EAAE,OAAO,CAAC,CAAA;QACpB,IAAI,CAAC,sBAAsB,GAAG,IAAI,CAAC,sBAAsB,IAAI,KAAK,CAAA;QAClE,IAAI,CAAC,OAAO,GAAG,SAAS,IAAI,IAAI,CAAC,CAAC,CAAC,IAAI,CAAC,OAAO,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,CAAA;IAC1D,CAAC;IAED,2EAA2E;IAC3E,IAAI,YAAY;QACd,OAAO,iEAAiE,CAAA;IAC1E,CAAC;IAED,MAAM;QACJ,MAAM,EAAE,QAAQ,EAAE,OAAO,EAAE,sBAAsB,EAAE,QAAQ,EAAE,GAAG,IAAI,CAAA;QACpE,IAAI,OAAO,CAAC,MAAM,KAAK,CAAC,EAAE,CAAC;YACzB,MAAM,CAAC,EAAE,MAAM,EAAE,CAAC,GAAG,OAAO,CAAA;YAC5B,OAAO,EAAE,QAAQ,EAAE,QAAQ,EAAE,MAAM,EAAE,sBAAsB,EAAE,CAAA;QAC/D,CAAC;QACD,OAAO,EAAE,QAAQ,EAAE,QAAQ,EAAE,OAAO,EAAE,sBAAsB,EAAE,CAAA;IAChE,CAAC;IAED,UAAU;QACR,MAAM,EAAE,QAAQ,EAAE,OAAO,EAAE,MAAM,EAAE,QAAQ,EAAE,GAAG,IAAI,CAAA;QACpD,OAAO,IAAI,yBAAyB,CAClC,EAAE,QAAQ,EAAE,OAAO,EAAE,QAAQ,EAAE,EAC/B,EAAE,MAAM,EAAE,CACX,CAAA;IACH,CAAC;CACF"}

package/dist/Changes/AddRefSeqAliasesChange.d.ts

@@ -1,4 +1,4 @@
-import { AssemblySpecificChange, type Change, type ChangeOptions, type ClientDataStore, type LocalGFF3DataStore, type SerializedAssemblySpecificChange, type ServerDataStore } from '@apollo-annotation/common';
+import { AssemblySpecificChange, type Change, type ChangeOptions, type SerializedAssemblySpecificChange } from '@apollo-annotation/common';
 export interface SerializedRefSeqAliases {
     refName: string;
     aliases: string[];
@@ -11,11 +11,8 @@ export declare class AddRefSeqAliasesChange extends AssemblySpecificChange {
     typeName: "AddRefSeqAliasesChange";
     refSeqAliases: SerializedRefSeqAliases[];
     constructor(json: SerializedRefSeqAliasesChange, options?: ChangeOptions);
-    executeOnClient(clientDataStore: ClientDataStore): Promise<void>;
     getInverse(): Change;
     toJSON(): SerializedRefSeqAliasesChange;
-    executeOnServer(backend: ServerDataStore): Promise<void>;
-    executeOnLocalGFF3(_backend: LocalGFF3DataStore): Promise<unknown>;
     get notification(): string;
 }
 //# sourceMappingURL=AddRefSeqAliasesChange.d.ts.map

package/dist/Changes/AddRefSeqAliasesChange.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"AddRefSeqAliasesChange.d.ts","sourceRoot":"","sources":["../../src/Changes/AddRefSeqAliasesChange.ts"],"names":[],"mappings":"AAAA,OAAO,EACL,sBAAsB,EACtB,KAAK,MAAM,EACX,KAAK,aAAa,EAClB,KAAK,gCAAgC,EACtC,MAAM,2BAA2B,CAAA;AAElC,MAAM,WAAW,uBAAuB;IACtC,OAAO,EAAE,MAAM,CAAA;IACf,OAAO,EAAE,MAAM,EAAE,CAAA;CAClB;AAED,MAAM,WAAW,6BACf,SAAQ,gCAAgC;IACxC,QAAQ,EAAE,wBAAwB,CAAA;IAClC,aAAa,EAAE,uBAAuB,EAAE,CAAA;CACzC;AAED,qBAAa,sBAAuB,SAAQ,sBAAsB;IAChE,QAAQ,2BAAoC;IAC5C,aAAa,EAAE,uBAAuB,EAAE,CAAA;gBAE5B,IAAI,EAAE,6BAA6B,EAAE,OAAO,CAAC,EAAE,aAAa;IAKxE,UAAU,IAAI,MAAM;IAIpB,MAAM,IAAI,6BAA6B;IAMvC,IAAI,YAAY,IAAI,MAAM,CAEzB;CACF"}

package/dist/Changes/AddRefSeqAliasesChange.js

@@ -1,8 +1,4 @@
-/* eslint-disable @typescript-eslint/no-unsafe-member-access */
-/* eslint-disable @typescript-eslint/no-unsafe-call */
-/* eslint-disable @typescript-eslint/no-unsafe-assignment */
 import { AssemblySpecificChange, } from '@apollo-annotation/common';
-import { getSession } from '@jbrowse/core/util';
 export class AddRefSeqAliasesChange extends AssemblySpecificChange {
     typeName = 'AddRefSeqAliasesChange';
     refSeqAliases;
@@ -10,22 +6,6 @@ export class AddRefSeqAliasesChange extends AssemblySpecificChange {
         super(json, options);
         this.refSeqAliases = json.refSeqAliases;
     }
-    executeOnClient(clientDataStore) {
-        const { assemblyManager } = getSession(clientDataStore);
-        const assembly = assemblyManager.get(this.assembly);
-        if (!assembly) {
-            throw new Error(`assembly ${this.assembly} not found`);
-        }
-        const sessionAliases = assembly.refNameAliases ?? {};
-        for (const refSeqAlias of this.refSeqAliases) {
-            const { aliases, refName } = refSeqAlias;
-            for (const alias of aliases) {
-                sessionAliases[alias] = refName;
-            }
-        }
-        assembly.setRefNameAliases(sessionAliases);
-        return Promise.resolve();
-    }
     getInverse() {
         throw new Error('Method not implemented.');
     }
@@ -33,20 +13,6 @@ export class AddRefSeqAliasesChange extends AssemblySpecificChange {
         const { assembly, refSeqAliases, typeName } = this;
         return { assembly, typeName, refSeqAliases };
     }
-    async executeOnServer(backend) {
-        const { refSeqModel, session } = backend;
-        const { assembly, logger, refSeqAliases } = this;
-        for (const refSeqAlias of refSeqAliases) {
-            logger.debug?.(`Updating Refname alias for assembly: ${assembly}, refSeqAlias: ${JSON.stringify(refSeqAlias)}`);
-            const { aliases, refName } = refSeqAlias;
-            await refSeqModel
-                .updateOne({ assembly, name: refName }, { $set: { aliases } })
-                .session(session);
-        }
-    }
-    executeOnLocalGFF3(_backend) {
-        throw new Error('Method not implemented.');
-    }
     // eslint-disable-next-line @typescript-eslint/class-literal-property-style
     get notification() {
         return 'RefSeq aliases have been added.';

package/dist/Changes/AddRefSeqAliasesChange.js.map

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

@@ -1,4 +1,4 @@
-import { AssemblySpecificChange, type ClientDataStore, type LocalGFF3DataStore, type SerializedAssemblySpecificChange, type ServerDataStore } from '@apollo-annotation/common';
+import { AssemblySpecificChange, type SerializedAssemblySpecificChange } from '@apollo-annotation/common';
 export interface SerializedDeleteAssemblyChange extends SerializedAssemblySpecificChange {
     typeName: 'DeleteAssemblyChange';
 }
@@ -6,14 +6,6 @@ export declare class DeleteAssemblyChange extends AssemblySpecificChange {
     typeName: "DeleteAssemblyChange";
     get notification(): string;
     toJSON(): SerializedDeleteAssemblyChange;
-    /**
-     * Applies the required change to database
-     * @param backend - parameters from backend
-     * @returns
-     */
-    executeOnServer(backend: ServerDataStore): Promise<void>;
-    executeOnLocalGFF3(_backend: LocalGFF3DataStore): Promise<void>;
-    executeOnClient(dataStore: ClientDataStore): Promise<void>;
     getInverse(): DeleteAssemblyChange;
 }
 //# sourceMappingURL=DeleteAssemblyChange.d.ts.map

package/dist/Changes/DeleteAssemblyChange.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"DeleteAssemblyChange.d.ts","sourceRoot":"","sources":["../../src/Changes/DeleteAssemblyChange.ts"],"names":[],"mappings":"AAAA,OAAO,EACL,sBAAsB,EACtB,KAAK,gCAAgC,EACtC,MAAM,2BAA2B,CAAA;AAElC,MAAM,WAAW,8BACf,SAAQ,gCAAgC;IACxC,QAAQ,EAAE,sBAAsB,CAAA;CACjC;AACD,qBAAa,oBAAqB,SAAQ,sBAAsB;IAC9D,QAAQ,yBAAkC;IAE1C,IAAI,YAAY,IAAI,MAAM,CAEzB;IAED,MAAM,IAAI,8BAA8B;IAKxC,UAAU;CAOX"}

package/dist/Changes/DeleteAssemblyChange.js

@@ -1,10 +1,4 @@
-/* eslint-disable @typescript-eslint/no-unsafe-assignment */
-/* eslint-disable @typescript-eslint/no-unsafe-return */
-/* eslint-disable @typescript-eslint/require-await */
-/* eslint-disable @typescript-eslint/no-unnecessary-condition */
-/* eslint-disable @typescript-eslint/no-unsafe-call */
 import { AssemblySpecificChange, } from '@apollo-annotation/common';
-import { getSession } from '@jbrowse/core/util';
 export class DeleteAssemblyChange extends AssemblySpecificChange {
     typeName = 'DeleteAssemblyChange';
     get notification() {
@@ -14,53 +8,6 @@ export class DeleteAssemblyChange extends AssemblySpecificChange {
         const { assembly, typeName } = this;
         return { typeName, assembly };
     }
-    /**
-     * Applies the required change to database
-     * @param backend - parameters from backend
-     * @returns
-     */
-    async executeOnServer(backend) {
-        const { assemblyModel, featureModel, refSeqChunkModel, refSeqModel, session, } = backend;
-        const { assembly, logger } = this;
-        const assemblyDoc = await assemblyModel
-            .findById(assembly)
-            .session(session)
-            .exec();
-        if (!assemblyDoc) {
-            const errMsg = `*** ERROR: Assembly with id "${assembly}" not found`;
-            logger.error(errMsg);
-            throw new Error(errMsg);
-        }
-        // We cannot use Mongo 'session' / transaction here because Mongo has 16 MB limit for transaction
-        // Get RefSeqs
-        const refSeqs = await refSeqModel.find({ assembly }).exec();
-        const refSeqIds = refSeqs.map((refSeq) => refSeq._id);
-        // Get and delete RefSeqChunks
-        await refSeqChunkModel.deleteMany({ refSeq: refSeqIds }).exec();
-        // Get and delete Features
-        await featureModel.deleteMany({ refSeq: refSeqIds }).exec();
-        // Delete RefSeqs and Assembly
-        await refSeqModel.deleteMany({ assembly }).exec();
-        await assemblyModel.findByIdAndDelete(assembly).exec();
-        logger.debug?.(`Assembly "${assembly}" deleted from database.`);
-    }
-    async executeOnLocalGFF3(_backend) {
-        throw new Error('executeOnLocalGFF3 not implemented');
-    }
-    async executeOnClient(dataStore) {
-        const { assembly } = this;
-        if (!dataStore) {
-            throw new Error('No data store');
-        }
-        const session = getSession(dataStore);
-        // If assemblyId is not present in client data store
-        if (dataStore.assemblies.has(assembly)) {
-            dataStore.deleteAssembly(assembly);
-        }
-        await session.removeAssembly?.(assembly);
-        // @ts-expect-error this isn't on the AbstractSessionModel
-        await session.removeSessionAssembly?.(assembly);
-    }
     getInverse() {
         const { assembly, logger } = this;
         return new DeleteAssemblyChange({ typeName: 'DeleteAssemblyChange', assembly }, { logger });

package/dist/Changes/DeleteAssemblyChange.js.map

@@ -1 +1 @@
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+{"version":3,"file":"DeleteAssemblyChange.js","sourceRoot":"","sources":["../../src/Changes/DeleteAssemblyChange.ts"],"names":[],"mappings":"AAAA,OAAO,EACL,sBAAsB,GAEvB,MAAM,2BAA2B,CAAA;AAMlC,MAAM,OAAO,oBAAqB,SAAQ,sBAAsB;IAC9D,QAAQ,GAAG,sBAA+B,CAAA;IAE1C,IAAI,YAAY;QACd,OAAO,aAAa,IAAI,CAAC,QAAQ,yBAAyB,CAAA;IAC5D,CAAC;IAED,MAAM;QACJ,MAAM,EAAE,QAAQ,EAAE,QAAQ,EAAE,GAAG,IAAI,CAAA;QACnC,OAAO,EAAE,QAAQ,EAAE,QAAQ,EAAE,CAAA;IAC/B,CAAC;IAED,UAAU;QACR,MAAM,EAAE,QAAQ,EAAE,MAAM,EAAE,GAAG,IAAI,CAAA;QACjC,OAAO,IAAI,oBAAoB,CAC7B,EAAE,QAAQ,EAAE,sBAAsB,EAAE,QAAQ,EAAE,EAC9C,EAAE,MAAM,EAAE,CACX,CAAA;IACH,CAAC;CACF"}

package/dist/Changes/DeleteUserChange.d.ts

@@ -1,4 +1,4 @@
-import { Change, type ChangeOptions, type ClientDataStore, type LocalGFF3DataStore, type SerializedChange, type ServerDataStore } from '@apollo-annotation/common';
+import { Change, type ChangeOptions, type SerializedChange } from '@apollo-annotation/common';
 export interface SerializedDeleteUserChangeBase extends SerializedChange {
     typeName: 'DeleteUserChange';
     userId: string;
@@ -17,9 +17,6 @@ export declare class DeleteUserChange extends Change {
     userId: string;
     constructor(json: SerializedDeleteUserChange, options?: ChangeOptions);
     toJSON(): SerializedDeleteUserChange;
-    executeOnServer(backend: ServerDataStore): Promise<void>;
-    executeOnLocalGFF3(_backend: LocalGFF3DataStore): Promise<void>;
-    executeOnClient(_dataStore: ClientDataStore): Promise<void>;
     getInverse(): DeleteUserChange;
 }
 export {};

package/dist/Changes/DeleteUserChange.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"DeleteUserChange.d.ts","sourceRoot":"","sources":["../../src/Changes/DeleteUserChange.ts"],"names":[],"mappings":"AAAA,OAAO,EACL,MAAM,EACN,KAAK,aAAa,EAClB,KAAK,gBAAgB,EACtB,MAAM,2BAA2B,CAAA;AAElC,MAAM,WAAW,8BAA+B,SAAQ,gBAAgB;IACtE,QAAQ,EAAE,kBAAkB,CAAA;IAC5B,MAAM,EAAE,MAAM,CAAA;CACf;AAGD,MAAM,WAAW,uBAAuB;CAAG;AAE3C,UAAU,gCACR,SAAQ,8BAA8B,EACpC,uBAAuB;CAAG;AAE9B,UAAU,kCACR,SAAQ,8BAA8B;IACtC,OAAO,EAAE,uBAAuB,EAAE,CAAA;CACnC;AAED,MAAM,MAAM,0BAA0B,GAClC,gCAAgC,GAChC,kCAAkC,CAAA;AAEtC,qBAAa,gBAAiB,SAAQ,MAAM;IAC1C,QAAQ,qBAA8B;IACtC,OAAO,EAAE,uBAAuB,EAAE,CAAA;IAClC,MAAM,EAAE,MAAM,CAAA;gBAEF,IAAI,EAAE,0BAA0B,EAAE,OAAO,CAAC,EAAE,aAAa;IAMrE,MAAM,IAAI,0BAA0B;IAKpC,UAAU;CAcX"}

package/dist/Changes/DeleteUserChange.js

@@ -1,4 +1,3 @@
-/* eslint-disable @typescript-eslint/require-await */
 import { Change, } from '@apollo-annotation/common';
 export class DeleteUserChange extends Change {
     typeName = 'DeleteUserChange';
@@ -13,24 +12,6 @@ export class DeleteUserChange extends Change {
         const { typeName, userId } = this;
         return { typeName, userId };
     }
-    async executeOnServer(backend) {
-        const { session, userModel } = backend;
-        const { logger, userId } = this;
-        const user = await userModel
-            .findOneAndDelete({ _id: userId })
-            .session(session)
-            .exec();
-        if (!user) {
-            const errMsg = `*** ERROR: User with id "${userId}" not found`;
-            logger.error(errMsg);
-            throw new Error(errMsg);
-        }
-    }
-    async executeOnLocalGFF3(_backend) {
-        throw new Error('executeOnLocalGFF3 not implemented');
-    }
-    // eslint-disable-next-line @typescript-eslint/no-empty-function
-    async executeOnClient(_dataStore) { }
     getInverse() {
         const { logger, typeName, userId } = this;
         return new DeleteUserChange({ typeName, userId }, { logger });

package/dist/Changes/DeleteUserChange.js.map

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

@@ -1,4 +1,4 @@
-import { type ChangeOptions, type ClientDataStore, FeatureChange, type LocalGFF3DataStore, type SerializedFeatureChange, type ServerDataStore } from '@apollo-annotation/common';
+import { type ChangeOptions, FeatureChange, type SerializedFeatureChange } from '@apollo-annotation/common';
 interface SerializedFeatureAttributeChangeBase extends SerializedFeatureChange {
     typeName: 'FeatureAttributeChange';
 }
@@ -18,14 +18,6 @@ export declare class FeatureAttributeChange extends FeatureChange {
     changes: FeatureAttributeChangeDetails[];
     constructor(json: SerializedFeatureAttributeChange, options?: ChangeOptions);
     toJSON(): SerializedFeatureAttributeChange;
-    /**
-     * Applies the required change to database
-     * @param backend - parameters from backend
-     * @returns
-     */
-    executeOnServer(backend: ServerDataStore): Promise<void>;
-    executeOnLocalGFF3(_backend: LocalGFF3DataStore): Promise<void>;
-    executeOnClient(dataStore: ClientDataStore): Promise<void>;
     getInverse(): FeatureAttributeChange;
 }
 export declare function isFeatureAttributeChange(change: unknown): change is FeatureAttributeChange;

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