larvitar 2.0.5 → 2.0.7

package/index.ts

@@ -1,431 +0,0 @@
-import pkg from "./package.json";
-const VERSION: string = pkg.version;
-console.groupCollapsed(
-  `%cLARVITAR %cv${VERSION}`,
-  "color: #404888; background: #209A71; font-weight: 900;",
-  "color: #BED730; background: #209A71; font-weight: 900;"
-);
-
-import cornerstone from "cornerstone-core";
-import cornerstoneTools from "cornerstone-tools";
-import { parseDicom } from "dicom-parser";
-
-import { default as cornerstoneDICOMImageLoader } from "cornerstone-wado-image-loader";
-const segModule = cornerstoneTools.getModule("segmentation");
-
-import {
-  checkAndClearMemory,
-  checkMemoryAllocation,
-  getUsedMemory,
-  getAvailableMemory
-} from "./imaging/monitors/memory";
-
-import {
-  getPerformanceMonitor,
-  activatePerformanceMonitor,
-  deactivatePerformanceMonitor
-} from "./imaging/monitors/performance";
-
-import store from "./imaging/imageStore";
-console.log(store);
-console.groupEnd();
-
-import { parseContours } from "./imaging/imageContours";
-
-import { parseECG } from "./imaging/parsers/ecg";
-
-import {
-  renderECG,
-  syncECGFrame,
-  updateECGFrame
-} from "./imaging/waveforms/ecg";
-
-import {
-  getImagePresets,
-  setImagePreset,
-  setImageCustomPreset
-} from "./imaging/imagePresets";
-
-import {
-  getNormalOrientation,
-  getMinPixelValue,
-  getMaxPixelValue,
-  getPixelRepresentation,
-  getTypedArrayFromDataType,
-  getSortedStack,
-  randomId,
-  getMeanValue,
-  getReslicedMetadata,
-  getReslicedPixeldata,
-  getDistanceBetweenSlices,
-  getImageMetadata
-} from "./imaging/imageUtils";
-
-import {
-  buildHeader,
-  getCachedPixelData,
-  buildData,
-  buildDataAsync,
-  importNRRDImage
-} from "./imaging/imageIo";
-
-import { anonymize } from "./imaging/imageAnonymization";
-
-import {
-  buildLayer,
-  updateLayer,
-  getActiveLayer,
-  setActiveLayer
-} from "./imaging/imageLayers";
-
-import {
-  initializeImageLoader,
-  initializeWebImageLoader,
-  initializeFileImageLoader,
-  registerNRRDImageLoader,
-  registerResliceLoader,
-  registerMultiFrameImageLoader,
-  updateLoadedStack
-} from "./imaging/imageLoading";
-
-import {
-  readFile,
-  readFiles,
-  parseDataSet,
-  clearImageParsing
-} from "./imaging/imageParsing";
-
-import {
-  clearImageCache,
-  loadAndCacheImages,
-  renderFileImage,
-  renderDICOMPDF,
-  renderWebImage,
-  disableViewport,
-  unloadViewport,
-  resizeViewport,
-  renderImage,
-  updateImage,
-  resetViewports,
-  updateViewportData,
-  storeViewportData,
-  invertImage,
-  flipImageHorizontal,
-  flipImageVertical,
-  rotateImageLeft,
-  rotateImageRight
-} from "./imaging/imageRendering";
-
-import { resliceSeries } from "./imaging/imageReslice";
-
-import {
-  addDiameterTool,
-  addContoursTool,
-  addMaskEditingTool,
-  getCurrentMaskData,
-  addStackStateToElement,
-  addSeedsTool,
-  clearMeasurements,
-  getToolState,
-  clearToolStateByName,
-  updateDiameterTool,
-  addToolStateSingleSlice,
-  clearCornerstoneElements,
-  syncToolStack,
-  updateStackToolState,
-  setSegmentationConfig
-} from "./imaging/imageTools";
-
-import {
-  csToolsCreateStack,
-  csToolsUpdateImageIds,
-  csToolsUpdateImageIndex,
-  initializeCSTools,
-  setToolsStyle,
-  addDefaultTools,
-  addTool,
-  setToolActive,
-  setToolDisabled,
-  setToolEnabled,
-  setToolPassive,
-  exportAnnotations
-} from "./imaging/tools/main";
-
-import {
-  DEFAULT_TOOLS,
-  dvTools,
-  getDefaultToolsByType,
-  setDefaultToolsProps,
-  registerExternalTool
-} from "./imaging/tools/default";
-
-import {
-  initSegmentationModule,
-  addSegmentationMask,
-  clearSegmentationState,
-  deleteMask,
-  setActiveLabelmap,
-  setActiveSegment,
-  enableBrushTool,
-  disableBrushTool,
-  undoLastStroke,
-  redoLastStroke,
-  setBrushProps,
-  toggleContourMode,
-  toggleVisibility,
-  hexToRgb,
-  rgbToHex,
-  getActiveLabelmapBuffer
-} from "./imaging/tools/segmentation";
-
-import {
-  updateLarvitarManager,
-  populateLarvitarManager,
-  getLarvitarManager,
-  getLarvitarImageTracker,
-  resetLarvitarManager,
-  removeSeriesFromLarvitarManager,
-  getSeriesDataFromLarvitarManager,
-  getImageFrame,
-  getSopInstanceUIDFromLarvitarManager
-} from "./imaging/loaders/commonLoader";
-
-import {
-  buildNrrdImage,
-  getNrrdImageId,
-  loadNrrdImage,
-  getImageIdFromSlice,
-  getSliceNumberFromImageId,
-  getNrrdSerieDimensions
-} from "./imaging/loaders/nrrdLoader";
-
-import {
-  getDicomImageId,
-  cacheImage,
-  cacheImages
-} from "./imaging/loaders/dicomLoader";
-
-import { loadReslicedImage } from "./imaging/loaders/resliceLoader";
-
-import {
-  loadMultiFrameImage,
-  buildMultiFrameImage,
-  getMultiFrameImageId,
-  clearMultiFrameCache
-} from "./imaging/loaders/multiframeLoader";
-
-import {
-  fileManager,
-  resetFileLoader,
-  resetFileManager,
-  populateFileManager,
-  getFileImageId
-} from "./imaging/loaders/fileLoader";
-
-import {
-  getColormapsList,
-  applyColorMap,
-  addColorMap,
-  fillPixelData,
-  HSVToRGB
-} from "./imaging/imageColormaps";
-
-import { saveAnnotations, loadAnnotations } from "./imaging/tools/io";
-
-import {
-  addMouseKeyHandlers,
-  removeMouseKeyHandlers,
-  toggleMouseToolsListeners
-} from "./imaging/tools/interaction";
-
-export {
-  VERSION,
-  // global cornerstone variables
-  cornerstone,
-  cornerstoneTools,
-  parseDicom,
-  segModule,
-  cornerstoneDICOMImageLoader,
-  // memory module
-  checkAndClearMemory,
-  checkMemoryAllocation,
-  getUsedMemory,
-  getAvailableMemory,
-  // performance module
-  getPerformanceMonitor,
-  activatePerformanceMonitor,
-  deactivatePerformanceMonitor,
-  // larvitarStore
-  store,
-  // parsers
-  parseECG,
-  syncECGFrame,
-  updateECGFrame,
-  // waveforms
-  renderECG,
-  // imagePresets
-  getImagePresets,
-  setImagePreset,
-  setImageCustomPreset,
-  // imageUtils
-  getNormalOrientation,
-  getMinPixelValue,
-  getMaxPixelValue,
-  getPixelRepresentation,
-  getTypedArrayFromDataType,
-  getSortedStack,
-  randomId,
-  getMeanValue,
-  getReslicedMetadata,
-  getReslicedPixeldata,
-  getDistanceBetweenSlices,
-  getImageMetadata,
-  // imageIo
-  buildHeader,
-  getCachedPixelData,
-  buildData,
-  buildDataAsync,
-  importNRRDImage,
-  // imageAnonymization
-  anonymize,
-  // imageLayers
-  buildLayer,
-  updateLayer,
-  getActiveLayer,
-  setActiveLayer,
-  // imageLoading
-  initializeImageLoader,
-  initializeWebImageLoader,
-  initializeFileImageLoader,
-  registerNRRDImageLoader,
-  registerResliceLoader,
-  registerMultiFrameImageLoader,
-  updateLoadedStack,
-  // imageParsing
-  readFile,
-  readFiles,
-  parseDataSet,
-  clearImageParsing,
-  // imageRendering
-  clearImageCache,
-  loadAndCacheImages,
-  renderFileImage,
-  renderDICOMPDF,
-  renderWebImage,
-  disableViewport,
-  unloadViewport,
-  resizeViewport,
-  renderImage,
-  updateImage,
-  resetViewports,
-  updateViewportData,
-  toggleMouseToolsListeners,
-  storeViewportData,
-  invertImage,
-  flipImageHorizontal,
-  flipImageVertical,
-  rotateImageLeft,
-  rotateImageRight,
-  // imageReslice
-  resliceSeries,
-  // imageColormaps
-  getColormapsList,
-  applyColorMap,
-  addColorMap,
-  fillPixelData,
-  HSVToRGB,
-  // imageContours
-  parseContours,
-  // loaders/commonLoader
-  updateLarvitarManager,
-  populateLarvitarManager,
-  getLarvitarManager,
-  getLarvitarImageTracker,
-  resetLarvitarManager,
-  removeSeriesFromLarvitarManager,
-  getSeriesDataFromLarvitarManager,
-  getImageFrame,
-  getSopInstanceUIDFromLarvitarManager,
-  // loaders/nrrdLoader
-  buildNrrdImage,
-  getNrrdImageId,
-  loadNrrdImage,
-  getImageIdFromSlice,
-  getSliceNumberFromImageId,
-  getNrrdSerieDimensions,
-  // loaders/resliceLoader
-  loadReslicedImage,
-  // loaders/dicomLoader
-  getDicomImageId,
-  cacheImage,
-  cacheImages,
-  // loaders/multiframeLoader
-  loadMultiFrameImage,
-  buildMultiFrameImage,
-  getMultiFrameImageId,
-  clearMultiFrameCache,
-  // loaders/fileLoader
-  fileManager,
-  resetFileLoader,
-  resetFileManager,
-  populateFileManager,
-  getFileImageId,
-  // imageTools
-  addDiameterTool,
-  addContoursTool,
-  addMaskEditingTool,
-  getCurrentMaskData,
-  addStackStateToElement,
-  addSeedsTool,
-  clearMeasurements,
-  getToolState,
-  clearToolStateByName,
-  updateDiameterTool,
-  addToolStateSingleSlice,
-  clearCornerstoneElements,
-  syncToolStack,
-  updateStackToolState,
-  setSegmentationConfig,
-  // tools/main
-  csToolsCreateStack,
-  csToolsUpdateImageIds,
-  csToolsUpdateImageIndex,
-  initializeCSTools,
-  setToolsStyle,
-  addDefaultTools,
-  addTool,
-  setToolActive,
-  setToolDisabled,
-  setToolEnabled,
-  setToolPassive,
-  exportAnnotations,
-  // tools/default
-  DEFAULT_TOOLS,
-  dvTools,
-  getDefaultToolsByType,
-  setDefaultToolsProps,
-  registerExternalTool,
-  // tools/io
-  saveAnnotations,
-  loadAnnotations,
-  // tools/interaction
-  addMouseKeyHandlers,
-  removeMouseKeyHandlers,
-  // tools/segmentation
-  initSegmentationModule,
-  addSegmentationMask,
-  setActiveLabelmap,
-  setActiveSegment,
-  undoLastStroke,
-  redoLastStroke,
-  setBrushProps,
-  hexToRgb,
-  rgbToHex,
-  clearSegmentationState,
-  deleteMask,
-  enableBrushTool,
-  disableBrushTool,
-  toggleContourMode,
-  toggleVisibility,
-  getActiveLabelmapBuffer
-};

package/jsdoc.json

@@ -1,52 +0,0 @@
-{
-  "tags": {
-    "allowUnknownTags": true
-  },
-  "source": {
-    "include": ["dist/", "./README.md"]
-  },
-  "plugins": ["plugins/markdown"],
-  "opts": {
-    "encoding": "utf8",
-    "template": "./template/docdash",
-    "destination": "./docs/documentation/",
-    "recurse": true,
-    "verbose": true
-  },
-  "markdown": {
-    "parser": "gfm",
-    "hardwrap": true,
-    "idInHeadings": true
-  },
-  "templates": {
-    "cleverLinks": false,
-    "monospaceLinks": false,
-    "default": {
-      "outputSourceFiles": true,
-      "includeDate": false,
-      "useLongnameInNav": true
-    }
-  },
-  "docdash": {
-    "static": true,
-    "sort": true,
-    "meta": {
-      "title": "Larvitar",
-      "description": "Dicom Image Toolkit for CornestoneJS",
-      "keyword": "imaging, dataviz, medical, cornerstone"
-    },
-    "search": true,
-    "collapse": true,
-    "typedefs": true,
-    "removeQuotes": "none",
-    "scripts": [],
-    "menu": {
-      "Github repo": {
-        "href": "https://github.com/dvisionlab/Larvitar",
-        "target": "_blank",
-        "class": "menu-item",
-        "id": "repository"
-      }
-    }
-  }
-}

package/rollup.config.js

@@ -1,51 +0,0 @@
-import resolve from "@rollup/plugin-node-resolve";
-import json from "@rollup/plugin-json";
-import commonjs from "@rollup/plugin-commonjs";
-import pkg from "./package.json";
-
-export default [
-  // browser-friendly UMD build
-  {
-    input: "index.js",
-    output: {
-      name: "larvitar",
-      file: pkg.browser,
-      format: "umd",
-      globals: {
-        fs: "fs",
-        path: "path"
-      }
-    },
-    plugins: [
-      resolve(),
-      {
-        jsnext: true,
-        main: true,
-        browser: true,
-        extensions: [".js", ".json"]
-        // preferBuiltins: true
-      }, // so Rollup can find node_modules
-      commonjs({
-        // requireReturnsDefault: "auto",
-        // esmExternals: true
-      }), // so Rollup can convert node_modules to an ES module,
-      json()
-    ]
-  }
-
-  // CommonJS (for Node) and ES module (for bundlers) build.
-  // (We could have three entries in the configuration array
-  // instead of two, but it's quicker to generate multiple
-  // builds from a single configuration where possible, using
-  // an array for the `output` option, where we can specify
-  // `file` and `format` for each target)
-  // {
-  //   input: "index.js",
-  //   // external: ["cornerstone-core"],
-  //   output: [
-  //     { file: pkg.common, format: "cjs" },
-  //     { file: pkg.module, format: "es" }
-  //   ],
-  //   plugins: [resolve(), commonjs(), json()]
-  // }
-];

package/tsconfig.json

@@ -1,102 +0,0 @@
-{
-  "compilerOptions": {
-    /* Visit https://aka.ms/tsconfig.json to read more about this file */
-
-    /* Projects */
-    // "incremental": true,                              /* Enable incremental compilation */
-    // "composite": true,                                /* Enable constraints that allow a TypeScript project to be used with project references. */
-    // "tsBuildInfoFile": "./",                          /* Specify the folder for .tsbuildinfo incremental compilation files. */
-    // "disableSourceOfProjectReferenceRedirect": true,  /* Disable preferring source files instead of declaration files when referencing composite projects */
-    // "disableSolutionSearching": true,                 /* Opt a project out of multi-project reference checking when editing. */
-    // "disableReferencedProjectLoad": true,             /* Reduce the number of projects loaded automatically by TypeScript. */
-
-    /* Language and Environment */
-    "target": "es2016" /* Set the JavaScript language version for emitted JavaScript and include compatible library declarations. */,
-    // "lib": [],                                        /* Specify a set of bundled library declaration files that describe the target runtime environment. */
-    // "jsx": "preserve",                                /* Specify what JSX code is generated. */
-    // "experimentalDecorators": true,                   /* Enable experimental support for TC39 stage 2 draft decorators. */
-    // "emitDecoratorMetadata": true,                    /* Emit design-type metadata for decorated declarations in source files. */
-    // "jsxFactory": "",                                 /* Specify the JSX factory function used when targeting React JSX emit, e.g. 'React.createElement' or 'h' */
-    // "jsxFragmentFactory": "",                         /* Specify the JSX Fragment reference used for fragments when targeting React JSX emit e.g. 'React.Fragment' or 'Fragment'. */
-    // "jsxImportSource": "",                            /* Specify module specifier used to import the JSX factory functions when using `jsx: react-jsx*`.` */
-    // "reactNamespace": "",                             /* Specify the object invoked for `createElement`. This only applies when targeting `react` JSX emit. */
-    // "noLib": true,                                    /* Disable including any library files, including the default lib.d.ts. */
-    // "useDefineForClassFields": true,                  /* Emit ECMAScript-standard-compliant class fields. */
-
-    /* Modules */
-    "module": "commonjs" /* Specify what module code is generated. */,
-    // "rootDir": "./",                                  /* Specify the root folder within your source files. */
-    // "moduleResolution": "node",                       /* Specify how TypeScript looks up a file from a given module specifier. */
-    // "baseUrl": "./",                                  /* Specify the base directory to resolve non-relative module names. */
-    // "paths": {},                                      /* Specify a set of entries that re-map imports to additional lookup locations. */
-    // "rootDirs": [],                                   /* Allow multiple folders to be treated as one when resolving modules. */
-    // "typeRoots": [],                                  /* Specify multiple folders that act like `./node_modules/@types`. */
-    // "types": [],                                      /* Specify type package names to be included without being referenced in a source file. */
-    "allowUmdGlobalAccess": true /* Allow accessing UMD globals from modules. */,
-    "resolveJsonModule": true /* Enable importing .json files */,
-    // "noResolve": true,                                /* Disallow `import`s, `require`s or `<reference>`s from expanding the number of files TypeScript should add to a project. */
-
-    /* JavaScript Support */
-    "allowJs": true /* Allow JavaScript files to be a part of your program. Use the `checkJS` option to get errors from these files. */,
-    // "checkJs": true,                                  /* Enable error reporting in type-checked JavaScript files. */
-    // "maxNodeModuleJsDepth": 1,                        /* Specify the maximum folder depth used for checking JavaScript files from `node_modules`. Only applicable with `allowJs`. */
-
-    /* Emit */
-    "declaration": true /* Generate .d.ts files from TypeScript and JavaScript files in your project. */,
-    // "declarationMap": true,                           /* Create sourcemaps for d.ts files. */
-    // "emitDeclarationOnly": true,                      /* Only output d.ts files and not JavaScript files. */
-    // "sourceMap": true,                                /* Create source map files for emitted JavaScript files. */
-    // "outFile": "larvitar.ts" /* Specify a file that bundles all outputs into one JavaScript file. If `declaration` is true, also designates a file that bundles all .d.ts output. */,
-    "outDir": "./dist" /* Specify an output folder for all emitted files. */,
-    // "removeComments": true,                           /* Disable emitting comments. */
-    // "noEmit": true,                                   /* Disable emitting files from a compilation. */
-    // "importHelpers": true,                            /* Allow importing helper functions from tslib once per project, instead of including them per-file. */
-    // "importsNotUsedAsValues": "remove",               /* Specify emit/checking behavior for imports that are only used for types */
-    // "downlevelIteration": true,                       /* Emit more compliant, but verbose and less performant JavaScript for iteration. */
-    // "sourceRoot": "",                                 /* Specify the root path for debuggers to find the reference source code. */
-    // "mapRoot": "",                                    /* Specify the location where debugger should locate map files instead of generated locations. */
-    // "inlineSourceMap": true,                          /* Include sourcemap files inside the emitted JavaScript. */
-    // "inlineSources": true,                            /* Include source code in the sourcemaps inside the emitted JavaScript. */
-    // "emitBOM": true,                                  /* Emit a UTF-8 Byte Order Mark (BOM) in the beginning of output files. */
-    // "newLine": "crlf",                                /* Set the newline character for emitting files. */
-    // "stripInternal": true,                            /* Disable emitting declarations that have `@internal` in their JSDoc comments. */
-    // "noEmitHelpers": true,                            /* Disable generating custom helper functions like `__extends` in compiled output. */
-    // "noEmitOnError": true,                            /* Disable emitting files if any type checking errors are reported. */
-    // "preserveConstEnums": true,                       /* Disable erasing `const enum` declarations in generated code. */
-    // "declarationDir": "./",                           /* Specify the output directory for generated declaration files. */
-    // "preserveValueImports": true,                     /* Preserve unused imported values in the JavaScript output that would otherwise be removed. */
-
-    /* Interop Constraints */
-    // "isolatedModules": true,                          /* Ensure that each file can be safely transpiled without relying on other imports. */
-    // "allowSyntheticDefaultImports": true,             /* Allow 'import x from y' when a module doesn't have a default export. */
-    "esModuleInterop": true /* Emit additional JavaScript to ease support for importing CommonJS modules. This enables `allowSyntheticDefaultImports` for type compatibility. */,
-    // "preserveSymlinks": true,                         /* Disable resolving symlinks to their realpath. This correlates to the same flag in node. */
-    "forceConsistentCasingInFileNames": true /* Ensure that casing is correct in imports. */,
-
-    /* Type Checking */
-    "strict": true /* Enable all strict type-checking options. */,
-    // "noImplicitAny": false /* Enable error reporting for expressions and declarations with an implied `any` type.. */,
-    // "strictNullChecks": true,                         /* When type checking, take into account `null` and `undefined`. */
-    // "strictFunctionTypes": true,                      /* When assigning functions, check to ensure parameters and the return values are subtype-compatible. */
-    // "strictBindCallApply": true,                      /* Check that the arguments for `bind`, `call`, and `apply` methods match the original function. */
-    // "strictPropertyInitialization": true,             /* Check for class properties that are declared but not set in the constructor. */
-    // "noImplicitThis": true,                           /* Enable error reporting when `this` is given the type `any`. */
-    // "useUnknownInCatchVariables": true,               /* Type catch clause variables as 'unknown' instead of 'any'. */
-    // "alwaysStrict": true,                             /* Ensure 'use strict' is always emitted. */
-    // "noUnusedLocals": true,                           /* Enable error reporting when a local variables aren't read. */
-    // "noUnusedParameters": true,                       /* Raise an error when a function parameter isn't read */
-    // "exactOptionalPropertyTypes": true,               /* Interpret optional property types as written, rather than adding 'undefined'. */
-    // "noImplicitReturns": true,                        /* Enable error reporting for codepaths that do not explicitly return in a function. */
-    // "noFallthroughCasesInSwitch": true,               /* Enable error reporting for fallthrough cases in switch statements. */
-    // "noUncheckedIndexedAccess": true,                 /* Include 'undefined' in index signature results */
-    // "noImplicitOverride": true,                       /* Ensure overriding members in derived classes are marked with an override modifier. */
-    // "noPropertyAccessFromIndexSignature": true,       /* Enforces using indexed accessors for keys declared using an indexed type */
-    // "allowUnusedLabels": true,                        /* Disable error reporting for unused labels. */
-    // "allowUnreachableCode": true,                     /* Disable error reporting for unreachable code. */
-
-    /* Completeness */
-    // "skipDefaultLibCheck": true,                      /* Skip type checking .d.ts files that are included with TypeScript. */
-    "skipLibCheck": true /* Skip type checking all .d.ts files. */
-  },
-  "include": ["./imaging/", "./decs.d.ts"]
-}