diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml index 5f0ae3be..3b0c91f1 100644 --- a/.github/workflows/tests.yml +++ b/.github/workflows/tests.yml @@ -15,7 +15,7 @@ jobs: - name: Setup Node.js uses: actions/setup-node@v1 with: - node-version: 16 + node-version: 18 - name: Install packages uses: bahmutov/npm-install@v1 diff --git a/netlify.toml b/netlify.toml index 22e53a37..35a2b739 100644 --- a/netlify.toml +++ b/netlify.toml @@ -11,6 +11,7 @@ base = "" publish = "examples/" command = "npm run build:examples" + environment = { NODE_VERSION = "18.16.0" } # Deploy Preview context: all deploys generated from a pull/merge request will # inherit these settings. @@ -18,3 +19,4 @@ base = "" publish = "examples/" command = "npm run build:examples" + environment = { NODE_VERSION = "18.16.0" } diff --git a/package-lock.json b/package-lock.json index cbe85e01..721268ae 100644 --- a/package-lock.json +++ b/package-lock.json @@ -1,15 +1,16 @@ { "name": "dcmjs", - "version": 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"dev": true - }, "unicode-canonical-property-names-ecmascript": { "version": "2.0.0", "resolved": "https://registry.npmjs.org/unicode-canonical-property-names-ecmascript/-/unicode-canonical-property-names-ecmascript-2.0.0.tgz", @@ -18455,39 +16835,14 @@ "integrity": "sha512-rBJeI5CXAlmy1pV+617WB9J63U6XcazHHF2f2dbJix4XzpUF0RS3Zbj0FGIOCAva5P/d/GBOYaACQ1w+0azUkg==", "dev": true }, - "unzipper": { - "version": "0.10.9", - "resolved": "https://registry.npmjs.org/unzipper/-/unzipper-0.10.9.tgz", - "integrity": "sha512-P89p3Ha3riBDO11ubSpUpmsjQ0nl/pby2troZBgSUTOI02InbEDe/KDSAZM1s3T/VyMXnZZa81rZBxxW3yXfcg==", + "update-browserslist-db": { + "version": "1.0.11", + "resolved": "https://registry.npmjs.org/update-browserslist-db/-/update-browserslist-db-1.0.11.tgz", + "integrity": "sha512-dCwEFf0/oT85M1fHBg4F0jtLwJrutGoHSQXCh7u4o2t1drG+c0a9Flnqww6XUKSfQMPpJBRjU8d4RXB09qtvaA==", "dev": true, "requires": { - "big-integer": "^1.6.17", - "binary": "~0.3.0", - "bluebird": "~3.4.1", - "buffer-indexof-polyfill": "~1.0.0", - "duplexer2": "~0.1.4", - "fstream": "^1.0.12", - "graceful-fs": "^4.2.2", - "listenercount": "~1.0.1", - "readable-stream": "~2.3.6", - "setimmediate": "~1.0.4" - }, - "dependencies": { - "readable-stream": { - "version": "2.3.7", - "resolved": "https://registry.npmjs.org/readable-stream/-/readable-stream-2.3.7.tgz", - "integrity": "sha512-Ebho8K4jIbHAxnuxi7o42OrZgF/ZTNcsZj6nRKyUmkhLFq8CHItp/fy6hQZuZmP/n3yZ9VBUbp4zz/mX8hmYPw==", - "dev": true, - "requires": { - "core-util-is": "~1.0.0", - "inherits": "~2.0.3", - "isarray": "~1.0.0", - "process-nextick-args": "~2.0.0", - "safe-buffer": "~5.1.1", - "string_decoder": "~1.1.1", - "util-deprecate": "~1.0.1" - } - } + "escalade": "^3.1.1", + "picocolors": "^1.0.0" } }, "uri-js": { @@ -18499,12 +16854,6 @@ "punycode": "^2.1.0" } }, - "util-deprecate": { - "version": "1.0.2", - "resolved": "https://registry.npmjs.org/util-deprecate/-/util-deprecate-1.0.2.tgz", - "integrity": "sha1-RQ1Nyfpw3nMnYvvS1KKJgUGaDM8=", - "dev": true - }, "v8-compile-cache": { "version": "2.3.0", "resolved": "https://registry.npmjs.org/v8-compile-cache/-/v8-compile-cache-2.3.0.tgz", @@ -18540,12 +16889,6 @@ "spdx-expression-parse": "^3.0.0" } }, - "vlq": { - "version": "0.2.3", - "resolved": "https://registry.npmjs.org/vlq/-/vlq-0.2.3.tgz", - "integrity": "sha512-DRibZL6DsNhIgYQ+wNdWDL2SL3bKPlVrRiBqV5yuMm++op8W4kGFtaQfCs4KEJn0wBZcHVHJ3eoywX8983k1ow==", - "dev": true - }, "w3c-hr-time": { "version": "1.0.2", "resolved": "https://registry.npmjs.org/w3c-hr-time/-/w3c-hr-time-1.0.2.tgz", @@ -18765,23 +17108,6 @@ "integrity": "sha512-JZnDKK8B0RCDw84FNdDAIpZK+JuJw+s7Lz8nksI7SIuU3UXJJslUthsi+uWBUYOwPFwW7W7PRLRfUKpxjtjFCw==", "dev": true }, - "xtend": { - "version": "2.1.2", - "resolved": "https://registry.npmjs.org/xtend/-/xtend-2.1.2.tgz", - "integrity": "sha1-bv7MKk2tjmlixJAbM3znuoe10os=", - "dev": true, - "requires": { - "object-keys": "~0.4.0" - }, - "dependencies": { - "object-keys": { - "version": "0.4.0", - "resolved": "https://registry.npmjs.org/object-keys/-/object-keys-0.4.0.tgz", - "integrity": "sha1-KKaq50KN0sOpLz2V8hM13SBOAzY=", - "dev": true - } - } - }, "y18n": { "version": "5.0.8", "resolved": "https://registry.npmjs.org/y18n/-/y18n-5.0.8.tgz", diff --git a/package.json b/package.json index 4630fe12..ead00a45 100644 --- a/package.json +++ b/package.json @@ -1,6 +1,6 @@ { "name": "dcmjs", - "version": "0.24.0", + "version": "0.30.0", "description": "Javascript implementation of DICOM manipulation", "main": "build/dcmjs.js", "module": "build/dcmjs.es.js", @@ -27,8 +27,13 @@ "homepage": "https://github.com/dcmjs-org/dcmjs#readme", "devDependencies": { "@babel/core": "^7.17.8", + "@babel/plugin-transform-runtime": "^7.22.5", "@babel/preset-env": "^7.16.11", "@babel/register": "^7.13.0", + "@rollup/plugin-babel": "^6.0.3", + "@rollup/plugin-commonjs": "^25.0.1", + "@rollup/plugin-json": "^6.0.0", + "@rollup/plugin-node-resolve": "^15.1.0", "acorn": "^7.1.0", "acorn-jsx": "^5.2.0", "eslint": "^8.17.0", @@ -38,18 +43,12 @@ "jest": "^27.5.1", "lint-staged": "^13.1.2", "prettier": "^2.6.2", - "rollup": "^1.31.1", - "rollup-plugin-babel": "^4.3.3", - "rollup-plugin-commonjs": "^9.3.4", - "rollup-plugin-json": "^3.1.0", - "rollup-plugin-node-builtins": "^2.1.2", - "rollup-plugin-node-globals": "^1.4.0", - "rollup-plugin-node-resolve": "^4.2.4", - "unzipper": "^0.10.9", + "rollup": "^3.25.1", "xml2js": "^0.4.23" }, "dependencies": { - "@babel/runtime-corejs2": "^7.17.8", + "@babel/runtime-corejs3": "^7.22.5", + "adm-zip": "^0.5.10", "gl-matrix": "^3.1.0", "lodash.clonedeep": "^4.5.0", "loglevelnext": "^3.0.1", diff --git a/rollup.config.js b/rollup.config.js deleted file mode 100644 index 3e8b2606..00000000 --- a/rollup.config.js +++ /dev/null @@ -1,37 +0,0 @@ -import babel from "rollup-plugin-babel"; -import resolve from "rollup-plugin-node-resolve"; -import globals from "rollup-plugin-node-globals"; -import builtins from "rollup-plugin-node-builtins"; -import commonjs from "rollup-plugin-commonjs"; -import json from "rollup-plugin-json"; -import pkg from "./package.json"; - -export default { - input: "src/index.js", - output: [ - { - file: pkg.main, - format: "umd", - name: "dcmjs", - sourcemap: true - }, - { - file: pkg.module, - format: "es", - sourcemap: true - } - ], - plugins: [ - resolve({ - browser: true - }), - commonjs(), - globals(), - builtins(), - babel({ - runtimeHelpers: true, - exclude: "node_modules/**" - }), - json() - ] -}; diff --git a/rollup.config.mjs b/rollup.config.mjs new file mode 100644 index 00000000..5e9e54a3 --- /dev/null +++ b/rollup.config.mjs @@ -0,0 +1,38 @@ +import babel from "@rollup/plugin-babel"; +import resolve from "@rollup/plugin-node-resolve"; +// import globals from "rollup-plugin-node-globals"; +// import builtins from "rollup-plugin-node-builtins"; +import commonjs from "@rollup/plugin-commonjs"; +// import babelRuntime from "@rollup/plugin-transform-runtime" +import json from "@rollup/plugin-json"; +import pkg from "./package.json" assert { type: "json" }; + +export default { + input: "src/index.js", + output: [ + { + file: pkg.main, + format: "umd", + name: "dcmjs", + sourcemap: true + }, + { + file: pkg.module, + format: "es", + sourcemap: true + } + ], + plugins: [ + resolve({ + browser: true + }), + commonjs(), + // globals(), + //builtins(), + // babelRuntime(), + babel({ + exclude: "node_modules/**" + }), + json() + ] +}; diff --git a/src/DicomMessage.js b/src/DicomMessage.js index adfc197e..bcd02dbe 100644 --- a/src/DicomMessage.js +++ b/src/DicomMessage.js @@ -8,6 +8,7 @@ import { import { DicomDict } from "./DicomDict.js"; import { DicomMetaDictionary } from "./DicomMetaDictionary.js"; import { Tag } from "./Tag.js"; +import { log } from "./log.js"; import { ValueRepresentation } from "./ValueRepresentation.js"; const singleVRs = ["SQ", "OF", "OW", "OB", "UN", "LT"]; @@ -77,7 +78,7 @@ class DicomMessage { untilTag = null, includeUntilTagValue = false ) { - console.warn("DicomMessage.read to be deprecated after dcmjs 0.24.x"); + log.warn("DicomMessage.read to be deprecated after dcmjs 0.24.x"); return this._read(bufferStream, syntax, { ignoreErrors: ignoreErrors, untilTag: untilTag, @@ -91,9 +92,7 @@ class DicomMessage { untilTag = null, includeUntilTagValue = false ) { - console.warn( - "DicomMessage.readTag to be deprecated after dcmjs 0.24.x" - ); + log.warn("DicomMessage.readTag to be deprecated after dcmjs 0.24.x"); return this._readTag(bufferStream, syntax, { untilTag: untilTag, includeUntilTagValue: includeUntilTagValue @@ -127,7 +126,7 @@ class DicomMessage { coding = encodingMapping[coding]; bufferStream.setDecoder(new TextDecoder(coding)); } else if (ignoreErrors) { - console.warn( + log.warn( `Unsupported character set: ${coding}, using default character set` ); } else { @@ -136,7 +135,7 @@ class DicomMessage { } if (readInfo.values.length > 1) { if (ignoreErrors) { - console.warn( + log.warn( "Using multiple character sets is not supported, proceeding with just the first character set", readInfo.values ); @@ -160,7 +159,7 @@ class DicomMessage { return dict; } catch (err) { if (ignoreErrors) { - console.warn("WARN:", err); + log.warn("WARN:", err); return dict; } throw err; diff --git a/src/ValueRepresentation.js b/src/ValueRepresentation.js index 46acbd3a..c476f2da 100644 --- a/src/ValueRepresentation.js +++ b/src/ValueRepresentation.js @@ -1,4 +1,4 @@ -import log from "./log.js"; +import { validationLog, log } from "./log.js"; import { DicomMessage } from "./DicomMessage.js"; import { ReadBufferStream } from "./BufferStream.js"; import { WriteBufferStream } from "./BufferStream.js"; @@ -162,13 +162,14 @@ class ValueRepresentation { if (type == "ox") { // TODO: determine VR based on context (could be 1 byte pixel data) // https://github.com/dgobbi/vtk-dicom/issues/38 - log.error("Invalid vr type " + type + " - using OW"); + validationLog.error("Invalid vr type", type, "- using OW"); vr = VRinstances["OW"]; } else if (type == "xs") { - log.error("Invalid vr type " + type + " - using US"); + validationLog.error("Invalid vr type", type, "- using US"); vr = VRinstances["US"]; } else { - log.error("Invalid vr type " + type + " - using UN"); + console.log("validationLog", validationLog.level); + validationLog.error("Invalid vr type", type, "- using UN"); vr = VRinstances["UN"]; } } diff --git a/src/anonymizer.js b/src/anonymizer.js index b8639281..9d2d89da 100644 --- a/src/anonymizer.js +++ b/src/anonymizer.js @@ -1,4 +1,3 @@ -import log from "./log.js"; import { DicomMetaDictionary } from "./DicomMetaDictionary.js"; import { Tag } from "./Tag.js"; diff --git a/src/bitArray.js b/src/bitArray.js index e4f82c5b..9b0fe26b 100644 --- a/src/bitArray.js +++ b/src/bitArray.js @@ -28,7 +28,7 @@ function getBytesForBinaryFrame(numPixels) { function pack(pixelData) { const numPixels = pixelData.length; - log.log("numPixels: " + numPixels); + log.debug("numPixels: " + numPixels); const length = getBytesForBinaryFrame(numPixels); //log.log('getBytesForBinaryFrame: ' + length); diff --git a/src/log.js b/src/log.js index 039f1f8a..f05584c5 100644 --- a/src/log.js +++ b/src/log.js @@ -2,5 +2,12 @@ import loglevelnext from "loglevelnext"; const log = loglevelnext.create("dcmjs"); -export { log }; +/** + * A validation log shows issues with data validation, and not internal issues itself. + * This is validation.dcmjs to group the validation issues into a single validation set to allow + * turning validation on/off. + */ +const validationLog = loglevelnext.create("validation.dcmjs"); + +export { log, validationLog }; export default log; diff --git a/test/anonymizer.test.js b/test/anonymizer.test.js index 3c61bd50..23def9f0 100644 --- a/test/anonymizer.test.js +++ b/test/anonymizer.test.js @@ -1,5 +1,9 @@ import dcmjs from "../src/index.js"; import fs from "fs"; +import { validationLog } from "./../src/log.js"; + +// Ignore validation errors +validationLog.level = 5; const { DicomMessage } = dcmjs.data; const { cleanTags, getTagsNameToEmpty } = dcmjs.anonymizer; diff --git a/test/data-options.test.js b/test/data-options.test.js index 8f0288cb..80b621df 100644 --- a/test/data-options.test.js +++ b/test/data-options.test.js @@ -3,16 +3,13 @@ import "regenerator-runtime/runtime.js"; import dcmjs from "../src/index.js"; import fs from "fs"; import path from "path"; -import os from "os"; import { promisify } from "util"; import fsPromises from "fs/promises"; import { getZippedTestDataset, getTestDataset } from "./testUtils.js"; const { DicomMetaDictionary, - DicomDict, DicomMessage, - ReadBufferStream } = dcmjs.data; const areEqual = (first, second) => diff --git a/test/data.test.js b/test/data.test.js index 7e9cd547..a9e44259 100644 --- a/test/data.test.js +++ b/test/data.test.js @@ -7,6 +7,7 @@ import path from "path"; import { WriteBufferStream } from "../src/BufferStream"; import dcmjs from "../src/index.js"; import { getTestDataset, getZippedTestDataset } from "./testUtils.js"; +import { log } from "./../src/log.js"; import { promisify } from "util"; import arrayItem from "./arrayItem.json"; @@ -669,12 +670,14 @@ describe("With a SpecificCharacterSet tag", () => { }); it("Throws an exception on an unsupported character set", async () => { + log.level = 5; expect(() => readEncodedLongString("nope", [])).toThrow( new Error("Unsupported character set: nope") ); }); it("Doesn't throw an exception on an unsupported character set when ignoring errors", async () => { + log.level = 5; expect( readEncodedLongString("nope", [0x68, 0x69], { ignoreErrors: true }) ).toEqual("hi"); diff --git a/test/integration/DicomMessage.readFile.test.js b/test/integration/DicomMessage.readFile.test.js index c71fdbb8..6b9b6076 100644 --- a/test/integration/DicomMessage.readFile.test.js +++ b/test/integration/DicomMessage.readFile.test.js @@ -1,6 +1,10 @@ import fs from 'fs'; import path from 'path'; import dcmjs from "../../src/index.js"; +import { validationLog } from "./../../src/log.js"; + +// Ignore validation errors +validationLog.level = 5; const { DicomMessage } = dcmjs.data; diff --git a/test/testUtils.js b/test/testUtils.js index 92b2b442..44fc8b55 100644 --- a/test/testUtils.js +++ b/test/testUtils.js @@ -1,13 +1,15 @@ import fs from "fs"; -import fsPromises from "fs/promises"; import os from "os"; import path from "path"; -import unzipper from "unzipper"; import followRedirects from "follow-redirects"; -import { promisify } from "util"; +import AdmZip from 'adm-zip'; +import { validationLog } from "./../src/log.js"; const { https } = followRedirects; +// Don't show validation errors, as those are normally tested +validationLog.level = 5; + function downloadToFile(url, filePath) { return new Promise((resolve, reject) => { const fileStream = fs.createWriteStream(filePath); @@ -23,11 +25,25 @@ function downloadToFile(url, filePath) { } function unzip(zipFilePath, targetPath) { - return new Promise(resolve => { - fs.createReadStream(zipFilePath).pipe( - unzipper.Extract({ path: targetPath }).on("close", resolve) - ); - }); + return new Promise( (resolve,reject) => { + try { + // reading archives + var zip = new AdmZip(zipFilePath); + var zipEntries = zip.getEntries(); // an array of ZipEntry records + // extracts everything + zip.extractAllTo(targetPath, true); + resolve(); + } catch(e) { + reject(e); + } + }); + + // This code is broken in Node 18+, creating garbage output + // return new Promise(resolve => { + // fs.createReadStream(zipFilePath).pipe( + // unzipper.Extract({ path: targetPath }).on("close", resolve) + // ); + // }); } function ensureTestDataDir() {