@milaboratories/pl-drivers 1.10.2 → 1.10.3

package/dist/clients/upload.cjs

@@ -1,9 +1,9 @@
 'use strict';
 
 var plClient = require('@milaboratories/pl-client');
+var fastCrc32c = require('fast-crc32c');
 var fsp = require('node:fs/promises');
 var undici = require('undici');
-var crc32 = require('@node-rs/crc32');
 var protocol = require('../proto/github.com/milaboratory/pl/controllers/shared/grpc/uploadapi/protocol.cjs');
 var protocol_client = require('../proto/github.com/milaboratory/pl/controllers/shared/grpc/uploadapi/protocol.client.cjs');
 
@@ -191,11 +191,9 @@ function checkStatusCodeOk(statusCode, body, headers, info) {
 }
 /** Calculate CRC32C checksum of a buffer and return as base64 string */
 function calculateCrc32cChecksum(data) {
-    // eslint-disable-next-line @typescript-eslint/no-unsafe-assignment, @typescript-eslint/no-unsafe-call
-    const checksum = crc32.crc32c(data);
+    const checksum = fastCrc32c.calculate(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/dist/clients/upload.cjs.map

@@ -1 +1 @@
-{"version":3,"file":"upload.cjs","sources":["../../src/clients/upload.ts"],"sourcesContent":["import type { GrpcClientProvider, GrpcClientProviderFactory, PlClient, ResourceId, ResourceType } from '@milaboratories/pl-client';\nimport { addRTypeToMetadata } from '@milaboratories/pl-client';\nimport type { ResourceInfo } from '@milaboratories/pl-tree';\nimport type { MiLogger } from '@milaboratories/ts-helpers';\nimport type { RpcOptions } from '@protobuf-ts/runtime-rpc';\nimport * as fs from 'node:fs/promises';\nimport type { Dispatcher } from 'undici';\nimport { request } from 'undici';\nimport { crc32c } from '@node-rs/crc32';\nimport { uploadapi_ChecksumAlgorithm, type uploadapi_GetPartURL_Response } from '../proto/github.com/milaboratory/pl/controllers/shared/grpc/uploadapi/protocol';\nimport { UploadClient } from '../proto/github.com/milaboratory/pl/controllers/shared/grpc/uploadapi/protocol.client';\n\nimport type { IncomingHttpHeaders } from 'undici/types/header';\n\nexport class MTimeError extends Error {\n  name = 'MTimeError';\n}\n\nexport class UnexpectedEOF extends Error {\n  name = 'UnexpectedEOF';\n}\n\nexport class NetworkError extends Error {\n  name = 'NetworkError';\n}\n\n/** Happens when the file doesn't exist */\nexport class NoFileForUploading extends Error {\n  name = 'NoFileForUploading';\n}\n\nexport class BadRequestError extends Error {\n  name = 'BadRequestError';\n}\n\n/** Low-level client for grpc uploadapi.\n * The user should pass here a concrete BlobUpload/<storageId> resource,\n * it can be got from handle field of BlobUpload. */\nexport class ClientUpload {\n  private readonly grpcClient: GrpcClientProvider<UploadClient>;\n\n  constructor(\n    grpcClientProviderFactory: GrpcClientProviderFactory,\n    public readonly httpClient: Dispatcher,\n    _: PlClient,\n    public readonly logger: MiLogger,\n  ) {\n    this.grpcClient = grpcClientProviderFactory.createGrpcClientProvider((transport) => new UploadClient(transport));\n  }\n\n  close() {}\n\n  public async initUpload(\n    { id, type }: ResourceInfo,\n    options?: RpcOptions,\n  ): Promise<{\n      overall: bigint;\n      toUpload: bigint[];\n      checksumAlgorithm: uploadapi_ChecksumAlgorithm;\n      checksumHeader: string;\n    }> {\n    const init = await this.grpcInit(id, type, options);\n    return {\n      overall: init.partsCount,\n      toUpload: this.partsToUpload(init.partsCount, init.uploadedParts),\n      checksumAlgorithm: init.checksumAlgorithm,\n      checksumHeader: init.checksumHeader,\n    };\n  }\n\n  public async partUpload(\n    { id, type }: ResourceInfo,\n    path: string,\n    expectedMTimeUnix: bigint,\n    partNumber: bigint,\n    checksumAlgorithm: uploadapi_ChecksumAlgorithm,\n    checksumHeader: string,\n    options?: RpcOptions,\n  ) {\n    const info = await this.grpcGetPartUrl(\n      { id, type },\n      partNumber,\n      0n, // we update progress as a separate call later.\n      options,\n    );\n\n    const chunk = await readFileChunk(path, info.chunkStart, info.chunkEnd);\n    await checkExpectedMTime(path, expectedMTimeUnix);\n\n    const crc32cChecksum = calculateCrc32cChecksum(chunk);\n    if (checksumAlgorithm === uploadapi_ChecksumAlgorithm.CRC32C) {\n      info.headers.push({ name: checksumHeader, value: crc32cChecksum });\n    }\n\n    const contentLength = Number(info.chunkEnd - info.chunkStart);\n    if (chunk.length !== contentLength) {\n      throw new Error(\n        `Chunk size mismatch: expected ${contentLength} bytes, but read ${chunk.length} bytes from file`,\n      );\n    }\n\n    const headers = Object.fromEntries(info.headers.map(({ name, value }) => [name, value]));\n\n    try {\n      const {\n        body: rawBody,\n        statusCode,\n        headers: responseHeaders,\n      } = await request(info.uploadUrl, {\n        dispatcher: this.httpClient,\n        body: chunk,\n        // We got headers only after we send\n        // the whole body (in case of S3 PUT requests it's 5 MB).\n        // It might be slow with a slow connection (or with SSH),\n        // that's why we got big timeout here.\n        headersTimeout: 60000,\n        bodyTimeout: 60000,\n        // Prevent connection reuse by setting \"Connection: close\" header.\n        // This works around an issue with the backend's built-in S3 implementation\n        // that caused HTTP/1.1 protocol lines to be included in the uploaded file content.\n        reset: true,\n        headers,\n        method: info.method.toUpperCase() as Dispatcher.HttpMethod,\n      });\n\n      // always read the body for resources to be garbage collected.\n      const body = await rawBody.text();\n      checkStatusCodeOk(statusCode, body, responseHeaders, info);\n    } catch (e: unknown) {\n      if (e instanceof NetworkError)\n        throw e;\n\n      if (e instanceof BadRequestError)\n        throw e;\n\n      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)}`);\n    }\n\n    await this.grpcUpdateProgress({ id, type }, BigInt(info.chunkEnd - info.chunkStart), options);\n  }\n\n  public async finalize(info: ResourceInfo, options?: RpcOptions) {\n    return await this.grpcFinalize(info, options);\n  }\n\n  /** Calculates parts that need to be uploaded from the parts that were\n   * already uploaded. */\n  private partsToUpload(partsCount: bigint, uploadedParts: bigint[]): bigint[] {\n    const toUpload: bigint[] = [];\n    const uploaded = new Set(uploadedParts);\n\n    for (let i = 1n; i <= partsCount; i++) {\n      if (!uploaded.has(i)) toUpload.push(i);\n    }\n\n    return toUpload;\n  }\n\n  private async grpcInit(id: ResourceId, type: ResourceType, options?: RpcOptions) {\n    return await this.grpcClient.get().init({ resourceId: id }, addRTypeToMetadata(type, options))\n      .response;\n  }\n\n  private async grpcGetPartUrl(\n    { id, type }: ResourceInfo,\n    partNumber: bigint,\n    uploadedPartSize: bigint,\n    options?: RpcOptions,\n  ) {\n    // partChecksum isn't used for now but protoc requires it to be set\n    return await this.grpcClient.get().getPartURL(\n      { resourceId: id, partNumber, uploadedPartSize, isInternalUse: false, partChecksum: '' },\n      addRTypeToMetadata(type, options),\n    ).response;\n  }\n\n  private async grpcUpdateProgress(\n    { id, type }: ResourceInfo,\n    bytesProcessed: bigint,\n    options?: RpcOptions,\n  ) {\n    await this.grpcClient.get().updateProgress(\n      {\n        resourceId: id,\n        bytesProcessed,\n      },\n      addRTypeToMetadata(type, options),\n    ).response;\n  }\n\n  private async grpcFinalize({ id, type }: ResourceInfo, options?: RpcOptions) {\n    return await this.grpcClient.get().finalize({ resourceId: id }, addRTypeToMetadata(type, options))\n      .response;\n  }\n}\n\nasync function readFileChunk(path: string, chunkStart: bigint, chunkEnd: bigint): Promise<Buffer> {\n  let f: fs.FileHandle | undefined;\n  try {\n    f = await fs.open(path);\n    const len = Number(chunkEnd - chunkStart);\n    const pos = Number(chunkStart);\n    const b = Buffer.alloc(len);\n    const bytesRead = await readBytesFromPosition(f, b, len, pos);\n\n    return b.subarray(0, bytesRead);\n  } catch (e: unknown) {\n    if (e && typeof e === 'object' && ('code' in e) && e.code == 'ENOENT') throw new NoFileForUploading(`there is no file ${path} for uploading`);\n    throw e;\n  } finally {\n    await f?.close();\n  }\n}\n\n/** Read len bytes from a given position.\n * Without this, `FileHandle.read` can read less bytes than needed. */\nasync function readBytesFromPosition(f: fs.FileHandle, b: Buffer, len: number, position: number) {\n  let bytesReadTotal = 0;\n  while (bytesReadTotal < len) {\n    const { bytesRead } = await f.read(\n      b,\n      bytesReadTotal,\n      len - bytesReadTotal,\n      position + bytesReadTotal,\n    );\n    if (bytesRead === 0) {\n      throw new UnexpectedEOF('file ended earlier than expected.');\n    }\n    bytesReadTotal += bytesRead;\n  }\n\n  return bytesReadTotal;\n}\n\nasync function checkExpectedMTime(path: string, expectedMTimeUnix: bigint) {\n  const mTime = BigInt(Math.floor((await fs.stat(path)).mtimeMs / 1000));\n  if (mTime > expectedMTimeUnix) {\n    throw new MTimeError(`file was modified, expected mtime: ${expectedMTimeUnix}, got: ${mTime}.`);\n  }\n}\n\nfunction checkStatusCodeOk(\n  statusCode: number,\n  body: string,\n  headers: IncomingHttpHeaders,\n  info: uploadapi_GetPartURL_Response,\n) {\n  if (statusCode == 400) {\n    throw new BadRequestError(`response is not ok, status code: ${statusCode},`\n      + ` body: ${body}, headers: ${JSON.stringify(headers)}, url: ${info.uploadUrl}`);\n  }\n\n  if (statusCode != 200) {\n    throw new NetworkError(\n      `response is not ok, status code: ${statusCode},`\n      + ` body: ${body}, headers: ${JSON.stringify(headers)}, url: ${info.uploadUrl}`,\n    );\n  }\n}\n\n/** Calculate CRC32C checksum of a buffer and return as base64 string */\nfunction calculateCrc32cChecksum(data: Buffer): string {\n  // eslint-disable-next-line @typescript-eslint/no-unsafe-assignment, @typescript-eslint/no-unsafe-call\n  const checksum = crc32c(data);\n  // Convert to unsigned 32-bit integer and then to base64\n  const buffer = Buffer.alloc(4);\n  // eslint-disable-next-line @typescript-eslint/no-unsafe-argument\n  buffer.writeUInt32BE(checksum, 0);\n  return 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+{"version":3,"file":"upload.cjs","sources":["../../src/clients/upload.ts"],"sourcesContent":["import type { GrpcClientProvider, GrpcClientProviderFactory, PlClient, ResourceId, ResourceType } from '@milaboratories/pl-client';\nimport { addRTypeToMetadata } from '@milaboratories/pl-client';\nimport type { ResourceInfo } from '@milaboratories/pl-tree';\nimport type { MiLogger } from '@milaboratories/ts-helpers';\nimport type { RpcOptions } from '@protobuf-ts/runtime-rpc';\nimport { calculate as crc32c } from 'fast-crc32c';\nimport * as fs from 'node:fs/promises';\nimport type { Dispatcher } from 'undici';\nimport { request } from 'undici';\nimport { uploadapi_ChecksumAlgorithm, type uploadapi_GetPartURL_Response } from '../proto/github.com/milaboratory/pl/controllers/shared/grpc/uploadapi/protocol';\nimport { UploadClient } from '../proto/github.com/milaboratory/pl/controllers/shared/grpc/uploadapi/protocol.client';\n\nimport type { IncomingHttpHeaders } from 'undici/types/header';\n\nexport class MTimeError extends Error {\n  name = 'MTimeError';\n}\n\nexport class UnexpectedEOF extends Error {\n  name = 'UnexpectedEOF';\n}\n\nexport class NetworkError extends Error {\n  name = 'NetworkError';\n}\n\n/** Happens when the file doesn't exist */\nexport class NoFileForUploading extends Error {\n  name = 'NoFileForUploading';\n}\n\nexport class BadRequestError extends Error {\n  name = 'BadRequestError';\n}\n\n/** Low-level client for grpc uploadapi.\n * The user should pass here a concrete BlobUpload/<storageId> resource,\n * it can be got from handle field of BlobUpload. */\nexport class ClientUpload {\n  private readonly grpcClient: GrpcClientProvider<UploadClient>;\n\n  constructor(\n    grpcClientProviderFactory: GrpcClientProviderFactory,\n    public readonly httpClient: Dispatcher,\n    _: PlClient,\n    public readonly logger: MiLogger,\n  ) {\n    this.grpcClient = grpcClientProviderFactory.createGrpcClientProvider((transport) => new UploadClient(transport));\n  }\n\n  close() {}\n\n  public async initUpload(\n    { id, type }: ResourceInfo,\n    options?: RpcOptions,\n  ): Promise<{\n      overall: bigint;\n      toUpload: bigint[];\n      checksumAlgorithm: uploadapi_ChecksumAlgorithm;\n      checksumHeader: string;\n    }> {\n    const init = await this.grpcInit(id, type, options);\n    return {\n      overall: init.partsCount,\n      toUpload: this.partsToUpload(init.partsCount, init.uploadedParts),\n      checksumAlgorithm: init.checksumAlgorithm,\n      checksumHeader: init.checksumHeader,\n    };\n  }\n\n  public async partUpload(\n    { id, type }: ResourceInfo,\n    path: string,\n    expectedMTimeUnix: bigint,\n    partNumber: bigint,\n    checksumAlgorithm: uploadapi_ChecksumAlgorithm,\n    checksumHeader: string,\n    options?: RpcOptions,\n  ) {\n    const info = await this.grpcGetPartUrl(\n      { id, type },\n      partNumber,\n      0n, // we update progress as a separate call later.\n      options,\n    );\n\n    const chunk = await readFileChunk(path, info.chunkStart, info.chunkEnd);\n    await checkExpectedMTime(path, expectedMTimeUnix);\n\n    const crc32cChecksum = calculateCrc32cChecksum(chunk);\n    if (checksumAlgorithm === uploadapi_ChecksumAlgorithm.CRC32C) {\n      info.headers.push({ name: checksumHeader, value: crc32cChecksum });\n    }\n\n    const contentLength = Number(info.chunkEnd - info.chunkStart);\n    if (chunk.length !== contentLength) {\n      throw new Error(\n        `Chunk size mismatch: expected ${contentLength} bytes, but read ${chunk.length} bytes from file`,\n      );\n    }\n\n    const headers = Object.fromEntries(info.headers.map(({ name, value }) => [name, value]));\n\n    try {\n      const {\n        body: rawBody,\n        statusCode,\n        headers: responseHeaders,\n      } = await request(info.uploadUrl, {\n        dispatcher: this.httpClient,\n        body: chunk,\n        // We got headers only after we send\n        // the whole body (in case of S3 PUT requests it's 5 MB).\n        // It might be slow with a slow connection (or with SSH),\n        // that's why we got big timeout here.\n        headersTimeout: 60000,\n        bodyTimeout: 60000,\n        // Prevent connection reuse by setting \"Connection: close\" header.\n        // This works around an issue with the backend's built-in S3 implementation\n        // that caused HTTP/1.1 protocol lines to be included in the uploaded file content.\n        reset: true,\n        headers,\n        method: info.method.toUpperCase() as Dispatcher.HttpMethod,\n      });\n\n      // always read the body for resources to be garbage collected.\n      const body = await rawBody.text();\n      checkStatusCodeOk(statusCode, body, responseHeaders, info);\n    } catch (e: unknown) {\n      if (e instanceof NetworkError)\n        throw e;\n\n      if (e instanceof BadRequestError)\n        throw e;\n\n      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)}`);\n    }\n\n    await this.grpcUpdateProgress({ id, type }, BigInt(info.chunkEnd - info.chunkStart), options);\n  }\n\n  public async finalize(info: ResourceInfo, options?: RpcOptions) {\n    return await this.grpcFinalize(info, options);\n  }\n\n  /** Calculates parts that need to be uploaded from the parts that were\n   * already uploaded. */\n  private partsToUpload(partsCount: bigint, uploadedParts: bigint[]): bigint[] {\n    const toUpload: bigint[] = [];\n    const uploaded = new Set(uploadedParts);\n\n    for (let i = 1n; i <= partsCount; i++) {\n      if (!uploaded.has(i)) toUpload.push(i);\n    }\n\n    return toUpload;\n  }\n\n  private async grpcInit(id: ResourceId, type: ResourceType, options?: RpcOptions) {\n    return await this.grpcClient.get().init({ resourceId: id }, addRTypeToMetadata(type, options))\n      .response;\n  }\n\n  private async grpcGetPartUrl(\n    { id, type }: ResourceInfo,\n    partNumber: bigint,\n    uploadedPartSize: bigint,\n    options?: RpcOptions,\n  ) {\n    // partChecksum isn't used for now but protoc requires it to be set\n    return await this.grpcClient.get().getPartURL(\n      { resourceId: id, partNumber, uploadedPartSize, isInternalUse: false, partChecksum: '' },\n      addRTypeToMetadata(type, options),\n    ).response;\n  }\n\n  private async grpcUpdateProgress(\n    { id, type }: ResourceInfo,\n    bytesProcessed: bigint,\n    options?: RpcOptions,\n  ) {\n    await this.grpcClient.get().updateProgress(\n      {\n        resourceId: id,\n        bytesProcessed,\n      },\n      addRTypeToMetadata(type, options),\n    ).response;\n  }\n\n  private async grpcFinalize({ id, type }: ResourceInfo, options?: RpcOptions) {\n    return await this.grpcClient.get().finalize({ resourceId: id }, addRTypeToMetadata(type, options))\n      .response;\n  }\n}\n\nasync function readFileChunk(path: string, chunkStart: bigint, chunkEnd: bigint): Promise<Buffer> {\n  let f: fs.FileHandle | undefined;\n  try {\n    f = await fs.open(path);\n    const len = Number(chunkEnd - chunkStart);\n    const pos = Number(chunkStart);\n    const b = Buffer.alloc(len);\n    const bytesRead = await readBytesFromPosition(f, b, len, pos);\n\n    return b.subarray(0, bytesRead);\n  } catch (e: unknown) {\n    if (e && typeof e === 'object' && ('code' in e) && e.code == 'ENOENT') throw new NoFileForUploading(`there is no file ${path} for uploading`);\n    throw e;\n  } finally {\n    await f?.close();\n  }\n}\n\n/** Read len bytes from a given position.\n * Without this, `FileHandle.read` can read less bytes than needed. */\nasync function readBytesFromPosition(f: fs.FileHandle, b: Buffer, len: number, position: number) {\n  let bytesReadTotal = 0;\n  while (bytesReadTotal < len) {\n    const { bytesRead } = await f.read(\n      b,\n      bytesReadTotal,\n      len - bytesReadTotal,\n      position + bytesReadTotal,\n    );\n    if (bytesRead === 0) {\n      throw new UnexpectedEOF('file ended earlier than expected.');\n    }\n    bytesReadTotal += bytesRead;\n  }\n\n  return bytesReadTotal;\n}\n\nasync function checkExpectedMTime(path: string, expectedMTimeUnix: bigint) {\n  const mTime = BigInt(Math.floor((await fs.stat(path)).mtimeMs / 1000));\n  if (mTime > expectedMTimeUnix) {\n    throw new MTimeError(`file was modified, expected mtime: ${expectedMTimeUnix}, got: ${mTime}.`);\n  }\n}\n\nfunction checkStatusCodeOk(\n  statusCode: number,\n  body: string,\n  headers: IncomingHttpHeaders,\n  info: uploadapi_GetPartURL_Response,\n) {\n  if (statusCode == 400) {\n    throw new BadRequestError(`response is not ok, status code: ${statusCode},`\n      + ` body: ${body}, headers: ${JSON.stringify(headers)}, url: ${info.uploadUrl}`);\n  }\n\n  if (statusCode != 200) {\n    throw new NetworkError(\n      `response is not ok, status code: ${statusCode},`\n      + ` body: ${body}, headers: ${JSON.stringify(headers)}, url: ${info.uploadUrl}`,\n    );\n  }\n}\n\n/** Calculate CRC32C checksum of a buffer and return as base64 string */\nfunction calculateCrc32cChecksum(data: Buffer): string {\n  const checksum = crc32c(data);\n  // Convert to unsigned 32-bit integer and then to base64\n  const buffer = Buffer.alloc(4);\n\n  buffer.writeUInt32BE(checksum, 0);\n  return 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package/dist/clients/upload.d.ts.map

@@ -1 +1 @@
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package/dist/clients/upload.js

@@ -1,7 +1,7 @@
 import { addRTypeToMetadata } from '@milaboratories/pl-client';
+import { calculate } from 'fast-crc32c';
 import * as fsp from 'node:fs/promises';
 import { request } from 'undici';
-import { crc32c } from '@node-rs/crc32';
 import { uploadapi_ChecksumAlgorithm } from '../proto/github.com/milaboratory/pl/controllers/shared/grpc/uploadapi/protocol.js';
 import { UploadClient } from '../proto/github.com/milaboratory/pl/controllers/shared/grpc/uploadapi/protocol.client.js';
 
@@ -170,11 +170,9 @@ function checkStatusCodeOk(statusCode, body, headers, info) {
 }
 /** Calculate CRC32C checksum of a buffer and return as base64 string */
 function calculateCrc32cChecksum(data) {
-    // eslint-disable-next-line @typescript-eslint/no-unsafe-assignment, @typescript-eslint/no-unsafe-call
-    const checksum = crc32c(data);
+    const checksum = calculate(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/dist/clients/upload.js.map

@@ -1 +1 @@
-{"version":3,"file":"upload.js","sources":["../../src/clients/upload.ts"],"sourcesContent":["import type { GrpcClientProvider, GrpcClientProviderFactory, PlClient, ResourceId, ResourceType } from '@milaboratories/pl-client';\nimport { addRTypeToMetadata } from '@milaboratories/pl-client';\nimport type { ResourceInfo } from '@milaboratories/pl-tree';\nimport type { MiLogger } from '@milaboratories/ts-helpers';\nimport type { RpcOptions } from '@protobuf-ts/runtime-rpc';\nimport * as fs from 'node:fs/promises';\nimport type { Dispatcher } from 'undici';\nimport { request } from 'undici';\nimport { crc32c } from '@node-rs/crc32';\nimport { uploadapi_ChecksumAlgorithm, type uploadapi_GetPartURL_Response } from '../proto/github.com/milaboratory/pl/controllers/shared/grpc/uploadapi/protocol';\nimport { UploadClient } from '../proto/github.com/milaboratory/pl/controllers/shared/grpc/uploadapi/protocol.client';\n\nimport type { IncomingHttpHeaders } from 'undici/types/header';\n\nexport class MTimeError extends Error {\n  name = 'MTimeError';\n}\n\nexport class UnexpectedEOF extends Error {\n  name = 'UnexpectedEOF';\n}\n\nexport class NetworkError extends Error {\n  name = 'NetworkError';\n}\n\n/** Happens when the file doesn't exist */\nexport class NoFileForUploading extends Error {\n  name = 'NoFileForUploading';\n}\n\nexport class BadRequestError extends Error {\n  name = 'BadRequestError';\n}\n\n/** Low-level client for grpc uploadapi.\n * The user should pass here a concrete BlobUpload/<storageId> resource,\n * it can be got from handle field of BlobUpload. */\nexport class ClientUpload {\n  private readonly grpcClient: GrpcClientProvider<UploadClient>;\n\n  constructor(\n    grpcClientProviderFactory: GrpcClientProviderFactory,\n    public readonly httpClient: Dispatcher,\n    _: PlClient,\n    public readonly logger: MiLogger,\n  ) {\n    this.grpcClient = grpcClientProviderFactory.createGrpcClientProvider((transport) => new UploadClient(transport));\n  }\n\n  close() {}\n\n  public async initUpload(\n    { id, type }: ResourceInfo,\n    options?: RpcOptions,\n  ): Promise<{\n      overall: bigint;\n      toUpload: bigint[];\n      checksumAlgorithm: uploadapi_ChecksumAlgorithm;\n      checksumHeader: string;\n    }> {\n    const init = await this.grpcInit(id, type, options);\n    return {\n      overall: init.partsCount,\n      toUpload: this.partsToUpload(init.partsCount, init.uploadedParts),\n      checksumAlgorithm: init.checksumAlgorithm,\n      checksumHeader: init.checksumHeader,\n    };\n  }\n\n  public async partUpload(\n    { id, type }: ResourceInfo,\n    path: string,\n    expectedMTimeUnix: bigint,\n    partNumber: bigint,\n    checksumAlgorithm: uploadapi_ChecksumAlgorithm,\n    checksumHeader: string,\n    options?: RpcOptions,\n  ) {\n    const info = await this.grpcGetPartUrl(\n      { id, type },\n      partNumber,\n      0n, // we update progress as a separate call later.\n      options,\n    );\n\n    const chunk = await readFileChunk(path, info.chunkStart, info.chunkEnd);\n    await checkExpectedMTime(path, expectedMTimeUnix);\n\n    const crc32cChecksum = calculateCrc32cChecksum(chunk);\n    if (checksumAlgorithm === uploadapi_ChecksumAlgorithm.CRC32C) {\n      info.headers.push({ name: checksumHeader, value: crc32cChecksum });\n    }\n\n    const contentLength = Number(info.chunkEnd - info.chunkStart);\n    if (chunk.length !== contentLength) {\n      throw new Error(\n        `Chunk size mismatch: expected ${contentLength} bytes, but read ${chunk.length} bytes from file`,\n      );\n    }\n\n    const headers = Object.fromEntries(info.headers.map(({ name, value }) => [name, value]));\n\n    try {\n      const {\n        body: rawBody,\n        statusCode,\n        headers: responseHeaders,\n      } = await request(info.uploadUrl, {\n        dispatcher: this.httpClient,\n        body: chunk,\n        // We got headers only after we send\n        // the whole body (in case of S3 PUT requests it's 5 MB).\n        // It might be slow with a slow connection (or with SSH),\n        // that's why we got big timeout here.\n        headersTimeout: 60000,\n        bodyTimeout: 60000,\n        // Prevent connection reuse by setting \"Connection: close\" header.\n        // This works around an issue with the backend's built-in S3 implementation\n        // that caused HTTP/1.1 protocol lines to be included in the uploaded file content.\n        reset: true,\n        headers,\n        method: info.method.toUpperCase() as Dispatcher.HttpMethod,\n      });\n\n      // always read the body for resources to be garbage collected.\n      const body = await rawBody.text();\n      checkStatusCodeOk(statusCode, body, responseHeaders, info);\n    } catch (e: unknown) {\n      if (e instanceof NetworkError)\n        throw e;\n\n      if (e instanceof BadRequestError)\n        throw e;\n\n      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)}`);\n    }\n\n    await this.grpcUpdateProgress({ id, type }, BigInt(info.chunkEnd - info.chunkStart), options);\n  }\n\n  public async finalize(info: ResourceInfo, options?: RpcOptions) {\n    return await this.grpcFinalize(info, options);\n  }\n\n  /** Calculates parts that need to be uploaded from the parts that were\n   * already uploaded. */\n  private partsToUpload(partsCount: bigint, uploadedParts: bigint[]): bigint[] {\n    const toUpload: bigint[] = [];\n    const uploaded = new Set(uploadedParts);\n\n    for (let i = 1n; i <= partsCount; i++) {\n      if (!uploaded.has(i)) toUpload.push(i);\n    }\n\n    return toUpload;\n  }\n\n  private async grpcInit(id: ResourceId, type: ResourceType, options?: RpcOptions) {\n    return await this.grpcClient.get().init({ resourceId: id }, addRTypeToMetadata(type, options))\n      .response;\n  }\n\n  private async grpcGetPartUrl(\n    { id, type }: ResourceInfo,\n    partNumber: bigint,\n    uploadedPartSize: bigint,\n    options?: RpcOptions,\n  ) {\n    // partChecksum isn't used for now but protoc requires it to be set\n    return await this.grpcClient.get().getPartURL(\n      { resourceId: id, partNumber, uploadedPartSize, isInternalUse: false, partChecksum: '' },\n      addRTypeToMetadata(type, options),\n    ).response;\n  }\n\n  private async grpcUpdateProgress(\n    { id, type }: ResourceInfo,\n    bytesProcessed: bigint,\n    options?: RpcOptions,\n  ) {\n    await this.grpcClient.get().updateProgress(\n      {\n        resourceId: id,\n        bytesProcessed,\n      },\n      addRTypeToMetadata(type, options),\n    ).response;\n  }\n\n  private async grpcFinalize({ id, type }: ResourceInfo, options?: RpcOptions) {\n    return await this.grpcClient.get().finalize({ resourceId: id }, addRTypeToMetadata(type, options))\n      .response;\n  }\n}\n\nasync function readFileChunk(path: string, chunkStart: bigint, chunkEnd: bigint): Promise<Buffer> {\n  let f: fs.FileHandle | undefined;\n  try {\n    f = await fs.open(path);\n    const len = Number(chunkEnd - chunkStart);\n    const pos = Number(chunkStart);\n    const b = Buffer.alloc(len);\n    const bytesRead = await readBytesFromPosition(f, b, len, pos);\n\n    return b.subarray(0, bytesRead);\n  } catch (e: unknown) {\n    if (e && typeof e === 'object' && ('code' in e) && e.code == 'ENOENT') throw new NoFileForUploading(`there is no file ${path} for uploading`);\n    throw e;\n  } finally {\n    await f?.close();\n  }\n}\n\n/** Read len bytes from a given position.\n * Without this, `FileHandle.read` can read less bytes than needed. */\nasync function readBytesFromPosition(f: fs.FileHandle, b: Buffer, len: number, position: number) {\n  let bytesReadTotal = 0;\n  while (bytesReadTotal < len) {\n    const { bytesRead } = await f.read(\n      b,\n      bytesReadTotal,\n      len - bytesReadTotal,\n      position + bytesReadTotal,\n    );\n    if (bytesRead === 0) {\n      throw new UnexpectedEOF('file ended earlier than expected.');\n    }\n    bytesReadTotal += bytesRead;\n  }\n\n  return bytesReadTotal;\n}\n\nasync function checkExpectedMTime(path: string, expectedMTimeUnix: bigint) {\n  const mTime = BigInt(Math.floor((await fs.stat(path)).mtimeMs / 1000));\n  if (mTime > expectedMTimeUnix) {\n    throw new MTimeError(`file was modified, expected mtime: ${expectedMTimeUnix}, got: ${mTime}.`);\n  }\n}\n\nfunction checkStatusCodeOk(\n  statusCode: number,\n  body: string,\n  headers: IncomingHttpHeaders,\n  info: uploadapi_GetPartURL_Response,\n) {\n  if (statusCode == 400) {\n    throw new BadRequestError(`response is not ok, status code: ${statusCode},`\n      + ` body: ${body}, headers: ${JSON.stringify(headers)}, url: ${info.uploadUrl}`);\n  }\n\n  if (statusCode != 200) {\n    throw new NetworkError(\n      `response is not ok, status code: ${statusCode},`\n      + ` body: ${body}, headers: ${JSON.stringify(headers)}, url: ${info.uploadUrl}`,\n    );\n  }\n}\n\n/** Calculate CRC32C checksum of a buffer and return as base64 string */\nfunction calculateCrc32cChecksum(data: Buffer): string {\n  // eslint-disable-next-line @typescript-eslint/no-unsafe-assignment, @typescript-eslint/no-unsafe-call\n  const checksum = crc32c(data);\n  // Convert to unsigned 32-bit integer and then to base64\n  const buffer = Buffer.alloc(4);\n  // eslint-disable-next-line @typescript-eslint/no-unsafe-argument\n  buffer.writeUInt32BE(checksum, 0);\n  return 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+{"version":3,"file":"upload.js","sources":["../../src/clients/upload.ts"],"sourcesContent":["import type { GrpcClientProvider, GrpcClientProviderFactory, PlClient, ResourceId, ResourceType } from '@milaboratories/pl-client';\nimport { addRTypeToMetadata } from '@milaboratories/pl-client';\nimport type { ResourceInfo } from '@milaboratories/pl-tree';\nimport type { MiLogger } from '@milaboratories/ts-helpers';\nimport type { RpcOptions } from '@protobuf-ts/runtime-rpc';\nimport { calculate as crc32c } from 'fast-crc32c';\nimport * as fs from 'node:fs/promises';\nimport type { Dispatcher } from 'undici';\nimport { request } from 'undici';\nimport { uploadapi_ChecksumAlgorithm, type uploadapi_GetPartURL_Response } from '../proto/github.com/milaboratory/pl/controllers/shared/grpc/uploadapi/protocol';\nimport { UploadClient } from '../proto/github.com/milaboratory/pl/controllers/shared/grpc/uploadapi/protocol.client';\n\nimport type { IncomingHttpHeaders } from 'undici/types/header';\n\nexport class MTimeError extends Error {\n  name = 'MTimeError';\n}\n\nexport class UnexpectedEOF extends Error {\n  name = 'UnexpectedEOF';\n}\n\nexport class NetworkError extends Error {\n  name = 'NetworkError';\n}\n\n/** Happens when the file doesn't exist */\nexport class NoFileForUploading extends Error {\n  name = 'NoFileForUploading';\n}\n\nexport class BadRequestError extends Error {\n  name = 'BadRequestError';\n}\n\n/** Low-level client for grpc uploadapi.\n * The user should pass here a concrete BlobUpload/<storageId> resource,\n * it can be got from handle field of BlobUpload. */\nexport class ClientUpload {\n  private readonly grpcClient: GrpcClientProvider<UploadClient>;\n\n  constructor(\n    grpcClientProviderFactory: GrpcClientProviderFactory,\n    public readonly httpClient: Dispatcher,\n    _: PlClient,\n    public readonly logger: MiLogger,\n  ) {\n    this.grpcClient = grpcClientProviderFactory.createGrpcClientProvider((transport) => new UploadClient(transport));\n  }\n\n  close() {}\n\n  public async initUpload(\n    { id, type }: ResourceInfo,\n    options?: RpcOptions,\n  ): Promise<{\n      overall: bigint;\n      toUpload: bigint[];\n      checksumAlgorithm: uploadapi_ChecksumAlgorithm;\n      checksumHeader: string;\n    }> {\n    const init = await this.grpcInit(id, type, options);\n    return {\n      overall: init.partsCount,\n      toUpload: this.partsToUpload(init.partsCount, init.uploadedParts),\n      checksumAlgorithm: init.checksumAlgorithm,\n      checksumHeader: init.checksumHeader,\n    };\n  }\n\n  public async partUpload(\n    { id, type }: ResourceInfo,\n    path: string,\n    expectedMTimeUnix: bigint,\n    partNumber: bigint,\n    checksumAlgorithm: uploadapi_ChecksumAlgorithm,\n    checksumHeader: string,\n    options?: RpcOptions,\n  ) {\n    const info = await this.grpcGetPartUrl(\n      { id, type },\n      partNumber,\n      0n, // we update progress as a separate call later.\n      options,\n    );\n\n    const chunk = await readFileChunk(path, info.chunkStart, info.chunkEnd);\n    await checkExpectedMTime(path, expectedMTimeUnix);\n\n    const crc32cChecksum = calculateCrc32cChecksum(chunk);\n    if (checksumAlgorithm === uploadapi_ChecksumAlgorithm.CRC32C) {\n      info.headers.push({ name: checksumHeader, value: crc32cChecksum });\n    }\n\n    const contentLength = Number(info.chunkEnd - info.chunkStart);\n    if (chunk.length !== contentLength) {\n      throw new Error(\n        `Chunk size mismatch: expected ${contentLength} bytes, but read ${chunk.length} bytes from file`,\n      );\n    }\n\n    const headers = Object.fromEntries(info.headers.map(({ name, value }) => [name, value]));\n\n    try {\n      const {\n        body: rawBody,\n        statusCode,\n        headers: responseHeaders,\n      } = await request(info.uploadUrl, {\n        dispatcher: this.httpClient,\n        body: chunk,\n        // We got headers only after we send\n        // the whole body (in case of S3 PUT requests it's 5 MB).\n        // It might be slow with a slow connection (or with SSH),\n        // that's why we got big timeout here.\n        headersTimeout: 60000,\n        bodyTimeout: 60000,\n        // Prevent connection reuse by setting \"Connection: close\" header.\n        // This works around an issue with the backend's built-in S3 implementation\n        // that caused HTTP/1.1 protocol lines to be included in the uploaded file content.\n        reset: true,\n        headers,\n        method: info.method.toUpperCase() as Dispatcher.HttpMethod,\n      });\n\n      // always read the body for resources to be garbage collected.\n      const body = await rawBody.text();\n      checkStatusCodeOk(statusCode, body, responseHeaders, info);\n    } catch (e: unknown) {\n      if (e instanceof NetworkError)\n        throw e;\n\n      if (e instanceof BadRequestError)\n        throw e;\n\n      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)}`);\n    }\n\n    await this.grpcUpdateProgress({ id, type }, BigInt(info.chunkEnd - info.chunkStart), options);\n  }\n\n  public async finalize(info: ResourceInfo, options?: RpcOptions) {\n    return await this.grpcFinalize(info, options);\n  }\n\n  /** Calculates parts that need to be uploaded from the parts that were\n   * already uploaded. */\n  private partsToUpload(partsCount: bigint, uploadedParts: bigint[]): bigint[] {\n    const toUpload: bigint[] = [];\n    const uploaded = new Set(uploadedParts);\n\n    for (let i = 1n; i <= partsCount; i++) {\n      if (!uploaded.has(i)) toUpload.push(i);\n    }\n\n    return toUpload;\n  }\n\n  private async grpcInit(id: ResourceId, type: ResourceType, options?: RpcOptions) {\n    return await this.grpcClient.get().init({ resourceId: id }, addRTypeToMetadata(type, options))\n      .response;\n  }\n\n  private async grpcGetPartUrl(\n    { id, type }: ResourceInfo,\n    partNumber: bigint,\n    uploadedPartSize: bigint,\n    options?: RpcOptions,\n  ) {\n    // partChecksum isn't used for now but protoc requires it to be set\n    return await this.grpcClient.get().getPartURL(\n      { resourceId: id, partNumber, uploadedPartSize, isInternalUse: false, partChecksum: '' },\n      addRTypeToMetadata(type, options),\n    ).response;\n  }\n\n  private async grpcUpdateProgress(\n    { id, type }: ResourceInfo,\n    bytesProcessed: bigint,\n    options?: RpcOptions,\n  ) {\n    await this.grpcClient.get().updateProgress(\n      {\n        resourceId: id,\n        bytesProcessed,\n      },\n      addRTypeToMetadata(type, options),\n    ).response;\n  }\n\n  private async grpcFinalize({ id, type }: ResourceInfo, options?: RpcOptions) {\n    return await this.grpcClient.get().finalize({ resourceId: id }, addRTypeToMetadata(type, options))\n      .response;\n  }\n}\n\nasync function readFileChunk(path: string, chunkStart: bigint, chunkEnd: bigint): Promise<Buffer> {\n  let f: fs.FileHandle | undefined;\n  try {\n    f = await fs.open(path);\n    const len = Number(chunkEnd - chunkStart);\n    const pos = Number(chunkStart);\n    const b = Buffer.alloc(len);\n    const bytesRead = await readBytesFromPosition(f, b, len, pos);\n\n    return b.subarray(0, bytesRead);\n  } catch (e: unknown) {\n    if (e && typeof e === 'object' && ('code' in e) && e.code == 'ENOENT') throw new NoFileForUploading(`there is no file ${path} for uploading`);\n    throw e;\n  } finally {\n    await f?.close();\n  }\n}\n\n/** Read len bytes from a given position.\n * Without this, `FileHandle.read` can read less bytes than needed. */\nasync function readBytesFromPosition(f: fs.FileHandle, b: Buffer, len: number, position: number) {\n  let bytesReadTotal = 0;\n  while (bytesReadTotal < len) {\n    const { bytesRead } = await f.read(\n      b,\n      bytesReadTotal,\n      len - bytesReadTotal,\n      position + bytesReadTotal,\n    );\n    if (bytesRead === 0) {\n      throw new UnexpectedEOF('file ended earlier than expected.');\n    }\n    bytesReadTotal += bytesRead;\n  }\n\n  return bytesReadTotal;\n}\n\nasync function checkExpectedMTime(path: string, expectedMTimeUnix: bigint) {\n  const mTime = BigInt(Math.floor((await fs.stat(path)).mtimeMs / 1000));\n  if (mTime > expectedMTimeUnix) {\n    throw new MTimeError(`file was modified, expected mtime: ${expectedMTimeUnix}, got: ${mTime}.`);\n  }\n}\n\nfunction checkStatusCodeOk(\n  statusCode: number,\n  body: string,\n  headers: IncomingHttpHeaders,\n  info: uploadapi_GetPartURL_Response,\n) {\n  if (statusCode == 400) {\n    throw new BadRequestError(`response is not ok, status code: ${statusCode},`\n      + ` body: ${body}, headers: ${JSON.stringify(headers)}, url: ${info.uploadUrl}`);\n  }\n\n  if (statusCode != 200) {\n    throw new NetworkError(\n      `response is not ok, status code: ${statusCode},`\n      + ` body: ${body}, headers: ${JSON.stringify(headers)}, url: ${info.uploadUrl}`,\n    );\n  }\n}\n\n/** Calculate CRC32C checksum of a buffer and return as base64 string */\nfunction calculateCrc32cChecksum(data: Buffer): string {\n  const checksum = crc32c(data);\n  // Convert to unsigned 32-bit integer and then to base64\n  const buffer = Buffer.alloc(4);\n\n  buffer.writeUInt32BE(checksum, 0);\n  return 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package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@milaboratories/pl-drivers",
-  "version": "1.10.2",
+  "version": "1.10.3",
   "engines": {
     "node": ">=20"
   },
@@ -20,37 +20,38 @@
     "src/**/*"
   ],
   "dependencies": {
-    "decompress": "^4.2.1",
     "@grpc/grpc-js": "~1.13.4",
     "@protobuf-ts/grpc-transport": "2.11.1",
+    "@protobuf-ts/plugin": "2.11.1",
     "@protobuf-ts/runtime": "2.11.1",
     "@protobuf-ts/runtime-rpc": "2.11.1",
-    "@protobuf-ts/plugin": "2.11.1",
+    "@types/fast-crc32c": "^2.0.2",
+    "decompress": "^4.2.1",
     "denque": "^2.1.0",
+    "fast-crc32c": "^2.0.0",
     "tar-fs": "^3.0.9",
     "undici": "~7.13.0",
-    "zod": "~3.23.8",
     "upath": "^2.0.1",
-    "@node-rs/crc32": "^1.10.6",
-    "@milaboratories/ts-helpers": "^1.4.5",
-    "@milaboratories/helpers": "^1.6.22",
-    "@milaboratories/pl-client": "^2.11.11",
-    "@milaboratories/pl-tree": "^1.7.7",
-    "@milaboratories/computable": "^2.6.5",
-    "@milaboratories/pl-model-common": "^1.19.13"
+    "zod": "~3.23.8",
+    "@milaboratories/ts-helpers": "1.4.5",
+    "@milaboratories/pl-client": "2.11.11",
+    "@milaboratories/pl-tree": "1.7.7",
+    "@milaboratories/pl-model-common": "1.19.13",
+    "@milaboratories/helpers": "1.6.22",
+    "@milaboratories/computable": "2.6.5"
   },
   "devDependencies": {
-    "eslint": "^9.25.1",
     "@types/decompress": "^4.2.7",
-    "typescript": "~5.6.3",
     "@types/node": "~20.16.15",
-    "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": "1.0.8",
+    "@vitest/coverage-v8": "^2.1.9",
+    "eslint": "^9.25.1",
+    "typescript": "~5.6.3",
+    "vitest": "^2.1.9",
     "@milaboratories/ts-builder": "1.0.5",
-    "@milaboratories/ts-configs": "1.0.6"
+    "@milaboratories/build-configs": "1.0.8",
+    "@milaboratories/ts-configs": "1.0.6",
+    "@milaboratories/eslint-config": "1.0.4"
   },
   "scripts": {
     "type-check": "ts-builder types --target node",

package/src/clients/upload.ts

@@ -3,10 +3,10 @@ import { addRTypeToMetadata } from '@milaboratories/pl-client';
 import type { ResourceInfo } from '@milaboratories/pl-tree';
 import type { MiLogger } from '@milaboratories/ts-helpers';
 import type { RpcOptions } from '@protobuf-ts/runtime-rpc';
+import { calculate as crc32c } from 'fast-crc32c';
 import * as fs from 'node:fs/promises';
 import type { Dispatcher } from 'undici';
 import { request } from 'undici';
-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';
 
@@ -260,11 +260,10 @@ 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');
 }