@milaboratories/pl-drivers 1.9.1 → 1.10.1

package/dist/proto/google/protobuf/struct.d.ts

@@ -1,4 +1,12 @@
-import { BinaryWriteOptions, IBinaryWriter, BinaryReadOptions, IBinaryReader, PartialMessage, JsonValue, JsonReadOptions, JsonWriteOptions, MessageType } from '@protobuf-ts/runtime';
+import type { BinaryWriteOptions } from "@protobuf-ts/runtime";
+import type { IBinaryWriter } from "@protobuf-ts/runtime";
+import type { BinaryReadOptions } from "@protobuf-ts/runtime";
+import type { IBinaryReader } from "@protobuf-ts/runtime";
+import type { PartialMessage } from "@protobuf-ts/runtime";
+import type { JsonValue } from "@protobuf-ts/runtime";
+import type { JsonReadOptions } from "@protobuf-ts/runtime";
+import type { JsonWriteOptions } from "@protobuf-ts/runtime";
+import { MessageType } from "@protobuf-ts/runtime";
 /**
  * `Struct` represents a structured data value, consisting of fields
  * which map to dynamically typed values. In some languages, `Struct`
@@ -176,3 +184,4 @@ declare class ListValue$Type extends MessageType<ListValue> {
  */
 export declare const ListValue: ListValue$Type;
 export {};
+//# sourceMappingURL=struct.d.ts.map

package/dist/proto/google/protobuf/struct.d.ts.map

@@ -0,0 +1 @@
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package/dist/proto/google/protobuf/timestamp.d.ts

@@ -1,4 +1,12 @@
-import { BinaryWriteOptions, IBinaryWriter, BinaryReadOptions, IBinaryReader, PartialMessage, JsonValue, JsonReadOptions, JsonWriteOptions, MessageType } from '@protobuf-ts/runtime';
+import type { BinaryWriteOptions } from "@protobuf-ts/runtime";
+import type { IBinaryWriter } from "@protobuf-ts/runtime";
+import type { BinaryReadOptions } from "@protobuf-ts/runtime";
+import type { IBinaryReader } from "@protobuf-ts/runtime";
+import type { PartialMessage } from "@protobuf-ts/runtime";
+import type { JsonValue } from "@protobuf-ts/runtime";
+import type { JsonReadOptions } from "@protobuf-ts/runtime";
+import type { JsonWriteOptions } from "@protobuf-ts/runtime";
+import { MessageType } from "@protobuf-ts/runtime";
 /**
  * A Timestamp represents a point in time independent of any time zone or local
  * calendar, encoded as a count of seconds and fractions of seconds at
@@ -145,3 +153,4 @@ declare class Timestamp$Type extends MessageType<Timestamp> {
  */
 export declare const Timestamp: Timestamp$Type;
 export {};
+//# sourceMappingURL=timestamp.d.ts.map

package/dist/proto/google/protobuf/timestamp.d.ts.map

@@ -0,0 +1 @@
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package/dist/proto/google/protobuf/wrappers.d.ts

@@ -1,4 +1,12 @@
-import { BinaryWriteOptions, IBinaryWriter, BinaryReadOptions, IBinaryReader, PartialMessage, JsonValue, JsonReadOptions, JsonWriteOptions, MessageType } from '@protobuf-ts/runtime';
+import type { BinaryWriteOptions } from "@protobuf-ts/runtime";
+import type { IBinaryWriter } from "@protobuf-ts/runtime";
+import type { BinaryReadOptions } from "@protobuf-ts/runtime";
+import type { IBinaryReader } from "@protobuf-ts/runtime";
+import type { PartialMessage } from "@protobuf-ts/runtime";
+import type { JsonValue } from "@protobuf-ts/runtime";
+import type { JsonReadOptions } from "@protobuf-ts/runtime";
+import type { JsonWriteOptions } from "@protobuf-ts/runtime";
+import { MessageType } from "@protobuf-ts/runtime";
 /**
  * Wrapper message for `double`.
  *
@@ -324,3 +332,4 @@ declare class BytesValue$Type extends MessageType<BytesValue> {
  */
 export declare const BytesValue: BytesValue$Type;
 export {};
+//# sourceMappingURL=wrappers.d.ts.map

package/dist/proto/google/protobuf/wrappers.d.ts.map

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

@@ -3,3 +3,4 @@
  * to the `assets` directory in this repository,
  * but in CI the storage is defined in env and it points to S3 bucket. */
 export declare const libraryStorage: string;
+//# sourceMappingURL=test_env.d.ts.map

package/dist/test_env.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"test_env.d.ts","sourceRoot":"","sources":["../src/test_env.ts"],"names":[],"mappings":"AAAA;;;yEAGyE;AACzE,eAAO,MAAM,cAAc,QAEd,CAAC"}

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@milaboratories/pl-drivers",
-  "version": "1.9.1",
+  "version": "1.10.1",
   "engines": {
     "node": ">=20"
   },
@@ -31,12 +31,13 @@
     "undici": "~7.13.0",
     "zod": "~3.23.8",
     "upath": "^2.0.1",
-    "@milaboratories/ts-helpers": "^1.4.4",
-    "@milaboratories/computable": "^2.6.4",
-    "@milaboratories/pl-client": "^2.11.9",
-    "@milaboratories/helpers": "^1.6.20",
-    "@milaboratories/pl-tree": "^1.7.6",
-    "@milaboratories/pl-model-common": "^1.19.8"
+    "@node-rs/crc32": "^1.10.6",
+    "@milaboratories/pl-client": "^2.11.10",
+    "@milaboratories/ts-helpers": "^1.4.5",
+    "@milaboratories/helpers": "^1.6.21",
+    "@milaboratories/computable": "^2.6.5",
+    "@milaboratories/pl-tree": "^1.7.7",
+    "@milaboratories/pl-model-common": "^1.19.11"
   },
   "devDependencies": {
     "eslint": "^9.25.1",
@@ -46,10 +47,10 @@
     "vitest": "^2.1.9",
     "@vitest/coverage-v8": "^2.1.9",
     "@types/tar-fs": "^2.0.4",
-    "@milaboratories/eslint-config": "^1.0.4",
-    "@milaboratories/build-configs": "1.0.6",
-    "@milaboratories/ts-builder": "1.0.1",
-    "@milaboratories/ts-configs": "1.0.6"
+    "@milaboratories/ts-configs": "1.0.6",
+    "@milaboratories/build-configs": "1.0.8",
+    "@milaboratories/ts-builder": "1.0.4",
+    "@milaboratories/eslint-config": "^1.0.4"
   },
   "scripts": {
     "type-check": "ts-builder types --target node",

package/src/clients/upload.ts

@@ -6,7 +6,8 @@ import type { RpcOptions } from '@protobuf-ts/runtime-rpc';
 import * as fs from 'node:fs/promises';
 import type { Dispatcher } from 'undici';
 import { request } from 'undici';
-import type { uploadapi_GetPartURL_Response } from '../proto/github.com/milaboratory/pl/controllers/shared/grpc/uploadapi/protocol';
+import { crc32c } from '@node-rs/crc32';
+import { uploadapi_ChecksumAlgorithm, type uploadapi_GetPartURL_Response } from '../proto/github.com/milaboratory/pl/controllers/shared/grpc/uploadapi/protocol';
 import { UploadClient } from '../proto/github.com/milaboratory/pl/controllers/shared/grpc/uploadapi/protocol.client';
 
 import type { IncomingHttpHeaders } from 'undici/types/header';
@@ -28,6 +29,10 @@ export class NoFileForUploading extends Error {
   name = 'NoFileForUploading';
 }
 
+export class BadRequestError extends Error {
+  name = 'BadRequestError';
+}
+
 /** Low-level client for grpc uploadapi.
  * The user should pass here a concrete BlobUpload/<storageId> resource,
  * it can be got from handle field of BlobUpload. */
@@ -51,11 +56,15 @@ export class ClientUpload {
   ): Promise<{
       overall: bigint;
       toUpload: bigint[];
+      checksumAlgorithm: uploadapi_ChecksumAlgorithm;
+      checksumHeader: string;
     }> {
     const init = await this.grpcInit(id, type, options);
     return {
       overall: init.partsCount,
       toUpload: this.partsToUpload(init.partsCount, init.uploadedParts),
+      checksumAlgorithm: init.checksumAlgorithm,
+      checksumHeader: init.checksumHeader,
     };
   }
 
@@ -64,6 +73,8 @@ export class ClientUpload {
     path: string,
     expectedMTimeUnix: bigint,
     partNumber: bigint,
+    checksumAlgorithm: uploadapi_ChecksumAlgorithm,
+    checksumHeader: string,
     options?: RpcOptions,
   ) {
     const info = await this.grpcGetPartUrl(
@@ -76,6 +87,11 @@ export class ClientUpload {
     const chunk = await readFileChunk(path, info.chunkStart, info.chunkEnd);
     await checkExpectedMTime(path, expectedMTimeUnix);
 
+    const crc32cChecksum = calculateCrc32cChecksum(chunk);
+    if (checksumAlgorithm === uploadapi_ChecksumAlgorithm.CRC32C) {
+      info.headers.push({ name: checksumHeader, value: crc32cChecksum });
+    }
+
     const contentLength = Number(info.chunkEnd - info.chunkStart);
     if (chunk.length !== contentLength) {
       throw new Error(
@@ -85,18 +101,6 @@ export class ClientUpload {
 
     const headers = Object.fromEntries(info.headers.map(({ name, value }) => [name, value]));
 
-    const contentLengthKey = Object.keys(headers).find((key) => key.toLowerCase() === 'content-length');
-    if (contentLengthKey) {
-      const existingContentLength = Number(headers[contentLengthKey]);
-      if (existingContentLength !== contentLength) {
-        throw new Error(
-          `Content-Length mismatch: expected ${contentLength}, but got ${existingContentLength} in headers`,
-        );
-      }
-    }
-
-    // content length will be automatically added by undici, so we don't need to set it here
-
     try {
       const {
         body: rawBody,
@@ -126,6 +130,9 @@ export class ClientUpload {
       if (e instanceof NetworkError)
         throw e;
 
+      if (e instanceof BadRequestError)
+        throw e;
+
       throw new Error(`partUpload: error ${JSON.stringify(e)} happened while trying to do part upload to the url ${info.uploadUrl}, headers: ${JSON.stringify(info.headers)}`);
     }
 
@@ -160,8 +167,9 @@ export class ClientUpload {
     uploadedPartSize: bigint,
     options?: RpcOptions,
   ) {
+    // partChecksum isn't used for now but protoc requires it to be set
     return await this.grpcClient.get().getPartURL(
-      { resourceId: id, partNumber, uploadedPartSize, isInternalUse: false },
+      { resourceId: id, partNumber, uploadedPartSize, isInternalUse: false, partChecksum: '' },
       addRTypeToMetadata(type, options),
     ).response;
   }
@@ -237,6 +245,11 @@ function checkStatusCodeOk(
   headers: IncomingHttpHeaders,
   info: uploadapi_GetPartURL_Response,
 ) {
+  if (statusCode == 400) {
+    throw new BadRequestError(`response is not ok, status code: ${statusCode},`
+      + ` body: ${body}, headers: ${JSON.stringify(headers)}, url: ${info.uploadUrl}`);
+  }
+
   if (statusCode != 200) {
     throw new NetworkError(
       `response is not ok, status code: ${statusCode},`
@@ -244,3 +257,14 @@ function checkStatusCodeOk(
     );
   }
 }
+
+/** Calculate CRC32C checksum of a buffer and return as base64 string */
+function calculateCrc32cChecksum(data: Buffer): string {
+  // eslint-disable-next-line @typescript-eslint/no-unsafe-assignment, @typescript-eslint/no-unsafe-call
+  const checksum = crc32c(data);
+  // Convert to unsigned 32-bit integer and then to base64
+  const buffer = Buffer.alloc(4);
+  // eslint-disable-next-line @typescript-eslint/no-unsafe-argument
+  buffer.writeUInt32BE(checksum, 0);
+  return buffer.toString('base64');
+}

package/src/drivers/ls.ts

@@ -1,6 +1,5 @@
 import type { PlClient, ResourceData, ResourceId } from '@milaboratories/pl-client';
 import { isNotNullResourceId } from '@milaboratories/pl-client';
-import type { MiLogger, Signer } from '@milaboratories/ts-helpers';
 import type * as sdk from '@milaboratories/pl-model-common';
 import type {
   LocalImportFileHandle,
@@ -13,9 +12,12 @@ import type {
 import {
   isImportFileHandleIndex,
 } from '@milaboratories/pl-model-common';
-import type { ClientLs } from '../clients/ls_api';
-import * as path from 'node:path';
+import type { MiLogger, Signer } from '@milaboratories/ts-helpers';
 import * as fsp from 'node:fs/promises';
+import * as path from 'node:path';
+import { createLsFilesClient } from '../clients/constructors';
+import type { ClientLs } from '../clients/ls_api';
+import { validateAbsolute } from '../helpers/validate';
 import {
   createIndexImportHandle,
   createUploadImportHandle,
@@ -28,9 +30,7 @@ import {
   parseStorageHandle,
 } from './helpers/ls_storage_entry';
 import type { LocalStorageProjection, VirtualLocalStorageSpec } from './types';
-import { validateAbsolute } from '../helpers/validate';
 import { DefaultVirtualLocalStorages } from './virtual_storages';
-import { createLsFilesClient } from '../clients/constructors';
 
 /**
  * Extends public and safe SDK's driver API with methods used internally in the middle
@@ -79,7 +79,18 @@ export class LsDriver implements InternalLsDriver {
     range?: TableRange,
   ): Promise<Uint8Array> {
     const localPath = await this.tryResolveLocalFileHandle(file);
-    if (range) throw new Error('Range request not yet supported.');
+
+    if (range) {
+      const fileHandle = await fsp.open(localPath, 'r');
+      try {
+        const buffer = Buffer.alloc(range.length);
+        const { bytesRead } = await fileHandle.read(buffer, 0, range.length, range.offset);
+        return new Uint8Array(buffer.subarray(0, bytesRead));
+      } finally {
+        await fileHandle.close();
+      }
+    }
+
     return await fsp.readFile(localPath);
   }
 

package/src/drivers/upload_task.ts

@@ -6,7 +6,7 @@ import type { AsyncPoolController, MiLogger, Signer } from '@milaboratories/ts-h
 import { asyncPool, CallersCounter } from '@milaboratories/ts-helpers';
 import type { ClientProgress, ProgressStatus } from '../clients/progress';
 import type { ClientUpload } from '../clients/upload';
-import { MTimeError, NoFileForUploading, UnexpectedEOF } from '../clients/upload';
+import { BadRequestError, MTimeError, NoFileForUploading, UnexpectedEOF } from '../clients/upload';
 import type { ImportResourceSnapshot } from './types';
 import { ImportFileHandleUploadData } from './types';
 import assert from 'node:assert';
@@ -80,9 +80,9 @@ export class UploadTask {
       );
       this.change.markChanged(`blob upload for ${resourceIdToString(this.res.id)} finished`);
     } catch (e: any) {
-      this.setRetriableError(e);
 
       if (isResourceWasDeletedError(e)) {
+        this.setRetriableError(e);
         this.logger.warn(`resource was deleted while uploading a blob: ${e}`);
         this.change.markChanged(`blob upload for ${resourceIdToString(this.res.id)} aborted, resource was deleted`);
         this.setDone(true);
@@ -98,6 +98,8 @@ export class UploadTask {
         return;
       }
 
+      this.setRetriableError(e);
+
       if (isHeadersTimeoutError(e)) {
         // we probably have a slow internet, we need to slow things a bit.
         this.nMaxUploads = decreaseConcurrency(this.logger, this.nMaxUploads, 1);
@@ -216,6 +218,8 @@ export async function uploadBlob(
       uploadData.localPath,
       BigInt(uploadData.modificationTime),
       part,
+      parts.checksumAlgorithm,
+      parts.checksumHeader,
       { timeout }
     );
     logger.info(`uploaded chunk ${part}/${parts.overall} of resource: ${res.id}`);
@@ -337,7 +341,10 @@ export function isResourceWasDeletedError(e: any) {
 }
 
 export function nonRecoverableError(e: any) {
-  return e instanceof MTimeError || e instanceof UnexpectedEOF || e instanceof NoFileForUploading;
+  return e instanceof MTimeError ||
+    e instanceof UnexpectedEOF ||
+    e instanceof NoFileForUploading ||
+    e instanceof BadRequestError;
 }
 
 function isHeadersTimeoutError(e: any) {

package/src/proto/github.com/milaboratory/pl/controllers/shared/grpc/uploadapi/protocol.ts

@@ -47,6 +47,22 @@ export interface uploadapi_Init_Response {
      * @generated from protobuf field: uint64 parts_count = 1
      */
     partsCount: bigint;
+    /**
+     * @generated from protobuf field: uint64 part_size = 3
+     */
+    partSize: bigint;
+    /**
+     * Checksum algorithm to use for the part upload.
+     *
+     * @generated from protobuf field: MiLaboratories.Controller.Shared.uploadapi.ChecksumAlgorithm checksum_algorithm = 4
+     */
+    checksumAlgorithm: uploadapi_ChecksumAlgorithm;
+    /**
+     * Header name to use for the checksum.
+     *
+     * @generated from protobuf field: string checksum_header = 5
+     */
+    checksumHeader: string;
     /**
      * List of IDs of parts that were already uploaded by client.
      * Helps client to recover upload and skip already done parts
@@ -134,6 +150,13 @@ export interface uploadapi_GetPartURL_Request {
      * @generated from protobuf field: bool is_internal_use = 4
      */
     isInternalUse: boolean;
+    /**
+     * Checksum is not used for now, but it is here for case
+     * where signing checksum header is required.
+     *
+     * @generated from protobuf field: string part_checksum = 5
+     */
+    partChecksum: string;
 }
 /**
  * @generated from protobuf message MiLaboratories.Controller.Shared.uploadapi.GetPartURL.HTTPHeader
@@ -208,6 +231,19 @@ export interface uploadapi_Finalize_Request {
  */
 export interface uploadapi_Finalize_Response {
 }
+/**
+ * @generated from protobuf enum MiLaboratories.Controller.Shared.uploadapi.ChecksumAlgorithm
+ */
+export enum uploadapi_ChecksumAlgorithm {
+    /**
+     * @generated from protobuf enum value: CHECKSUM_ALGORITHM_UNSPECIFIED = 0;
+     */
+    UNSPECIFIED = 0,
+    /**
+     * @generated from protobuf enum value: CHECKSUM_ALGORITHM_CRC32C = 1;
+     */
+    CRC32C = 1
+}
 // @generated message type with reflection information, may provide speed optimized methods
 class uploadapi$Type extends MessageType<uploadapi> {
     constructor() {
@@ -336,12 +372,18 @@ class uploadapi_Init_Response$Type extends MessageType<uploadapi_Init_Response>
     constructor() {
         super("MiLaboratories.Controller.Shared.uploadapi.Init.Response", [
             { no: 1, name: "parts_count", kind: "scalar", T: 4 /*ScalarType.UINT64*/, L: 0 /*LongType.BIGINT*/ },
+            { no: 3, name: "part_size", kind: "scalar", T: 4 /*ScalarType.UINT64*/, L: 0 /*LongType.BIGINT*/ },
+            { no: 4, name: "checksum_algorithm", kind: "enum", T: () => ["MiLaboratories.Controller.Shared.uploadapi.ChecksumAlgorithm", uploadapi_ChecksumAlgorithm, "CHECKSUM_ALGORITHM_"] },
+            { no: 5, name: "checksum_header", kind: "scalar", T: 9 /*ScalarType.STRING*/ },
             { no: 2, name: "uploaded_parts", kind: "scalar", repeat: 1 /*RepeatType.PACKED*/, T: 4 /*ScalarType.UINT64*/, L: 0 /*LongType.BIGINT*/ }
         ]);
     }
     create(value?: PartialMessage<uploadapi_Init_Response>): uploadapi_Init_Response {
         const message = globalThis.Object.create((this.messagePrototype!));
         message.partsCount = 0n;
+        message.partSize = 0n;
+        message.checksumAlgorithm = 0;
+        message.checksumHeader = "";
         message.uploadedParts = [];
         if (value !== undefined)
             reflectionMergePartial<uploadapi_Init_Response>(this, message, value);
@@ -355,6 +397,15 @@ class uploadapi_Init_Response$Type extends MessageType<uploadapi_Init_Response>
                 case /* uint64 parts_count */ 1:
                     message.partsCount = reader.uint64().toBigInt();
                     break;
+                case /* uint64 part_size */ 3:
+                    message.partSize = reader.uint64().toBigInt();
+                    break;
+                case /* MiLaboratories.Controller.Shared.uploadapi.ChecksumAlgorithm checksum_algorithm */ 4:
+                    message.checksumAlgorithm = reader.int32();
+                    break;
+                case /* string checksum_header */ 5:
+                    message.checksumHeader = reader.string();
+                    break;
                 case /* repeated uint64 uploaded_parts */ 2:
                     if (wireType === WireType.LengthDelimited)
                         for (let e = reader.int32() + reader.pos; reader.pos < e;)
@@ -384,6 +435,15 @@ class uploadapi_Init_Response$Type extends MessageType<uploadapi_Init_Response>
                 writer.uint64(message.uploadedParts[i]);
             writer.join();
         }
+        /* uint64 part_size = 3; */
+        if (message.partSize !== 0n)
+            writer.tag(3, WireType.Varint).uint64(message.partSize);
+        /* MiLaboratories.Controller.Shared.uploadapi.ChecksumAlgorithm checksum_algorithm = 4; */
+        if (message.checksumAlgorithm !== 0)
+            writer.tag(4, WireType.Varint).int32(message.checksumAlgorithm);
+        /* string checksum_header = 5; */
+        if (message.checksumHeader !== "")
+            writer.tag(5, WireType.LengthDelimited).string(message.checksumHeader);
         let u = options.writeUnknownFields;
         if (u !== false)
             (u == true ? UnknownFieldHandler.onWrite : u)(this.typeName, message, writer);
@@ -570,7 +630,8 @@ class uploadapi_GetPartURL_Request$Type extends MessageType<uploadapi_GetPartURL
             { no: 1, name: "resource_id", kind: "scalar", T: 4 /*ScalarType.UINT64*/, L: 0 /*LongType.BIGINT*/ },
             { no: 2, name: "part_number", kind: "scalar", T: 4 /*ScalarType.UINT64*/, L: 0 /*LongType.BIGINT*/ },
             { no: 3, name: "uploaded_part_size", kind: "scalar", T: 4 /*ScalarType.UINT64*/, L: 0 /*LongType.BIGINT*/ },
-            { no: 4, name: "is_internal_use", kind: "scalar", T: 8 /*ScalarType.BOOL*/ }
+            { no: 4, name: "is_internal_use", kind: "scalar", T: 8 /*ScalarType.BOOL*/ },
+            { no: 5, name: "part_checksum", kind: "scalar", T: 9 /*ScalarType.STRING*/ }
         ]);
     }
     create(value?: PartialMessage<uploadapi_GetPartURL_Request>): uploadapi_GetPartURL_Request {
@@ -579,6 +640,7 @@ class uploadapi_GetPartURL_Request$Type extends MessageType<uploadapi_GetPartURL
         message.partNumber = 0n;
         message.uploadedPartSize = 0n;
         message.isInternalUse = false;
+        message.partChecksum = "";
         if (value !== undefined)
             reflectionMergePartial<uploadapi_GetPartURL_Request>(this, message, value);
         return message;
@@ -600,6 +662,9 @@ class uploadapi_GetPartURL_Request$Type extends MessageType<uploadapi_GetPartURL
                 case /* bool is_internal_use */ 4:
                     message.isInternalUse = reader.bool();
                     break;
+                case /* string part_checksum */ 5:
+                    message.partChecksum = reader.string();
+                    break;
                 default:
                     let u = options.readUnknownField;
                     if (u === "throw")
@@ -624,6 +689,9 @@ class uploadapi_GetPartURL_Request$Type extends MessageType<uploadapi_GetPartURL
         /* bool is_internal_use = 4; */
         if (message.isInternalUse !== false)
             writer.tag(4, WireType.Varint).bool(message.isInternalUse);
+        /* string part_checksum = 5; */
+        if (message.partChecksum !== "")
+            writer.tag(5, WireType.LengthDelimited).string(message.partChecksum);
         let u = options.writeUnknownFields;
         if (u !== false)
             (u == true ? UnknownFieldHandler.onWrite : u)(this.typeName, message, writer);