@loaders.gl/geotiff 3.4.0-alpha.2 → 3.4.0-alpha.3
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/dist/es5/bundle.js.map +1 -1
- package/dist/es5/index.js.map +1 -1
- package/dist/es5/lib/load-geotiff.js +44 -48
- package/dist/es5/lib/load-geotiff.js.map +1 -1
- package/dist/es5/lib/ome/load-ome-tiff.js +34 -37
- package/dist/es5/lib/ome/load-ome-tiff.js.map +1 -1
- package/dist/es5/lib/ome/ome-indexers.js +33 -38
- package/dist/es5/lib/ome/ome-indexers.js.map +1 -1
- package/dist/es5/lib/ome/ome-utils.js +0 -3
- package/dist/es5/lib/ome/ome-utils.js.map +1 -1
- package/dist/es5/lib/ome/omexml.js.map +1 -1
- package/dist/es5/lib/ome/utils.js +0 -2
- package/dist/es5/lib/ome/utils.js.map +1 -1
- package/dist/es5/lib/tiff-pixel-source.js +58 -65
- package/dist/es5/lib/tiff-pixel-source.js.map +1 -1
- package/dist/es5/lib/utils/Pool.js +49 -59
- package/dist/es5/lib/utils/Pool.js.map +1 -1
- package/dist/es5/lib/utils/proxies.js +0 -7
- package/dist/es5/lib/utils/proxies.js.map +1 -1
- package/dist/es5/lib/utils/tiff-utils.js +0 -4
- package/dist/es5/lib/utils/tiff-utils.js.map +1 -1
- package/dist/esm/lib/load-geotiff.js +1 -6
- package/dist/esm/lib/load-geotiff.js.map +1 -1
- package/dist/esm/lib/ome/load-ome-tiff.js +0 -2
- package/dist/esm/lib/ome/load-ome-tiff.js.map +1 -1
- package/dist/esm/lib/ome/ome-indexers.js +0 -7
- package/dist/esm/lib/ome/ome-indexers.js.map +1 -1
- package/dist/esm/lib/ome/ome-utils.js +0 -3
- package/dist/esm/lib/ome/ome-utils.js.map +1 -1
- package/dist/esm/lib/ome/omexml.js +0 -1
- package/dist/esm/lib/ome/omexml.js.map +1 -1
- package/dist/esm/lib/ome/utils.js +0 -3
- package/dist/esm/lib/ome/utils.js.map +1 -1
- package/dist/esm/lib/tiff-pixel-source.js +0 -3
- package/dist/esm/lib/tiff-pixel-source.js.map +1 -1
- package/dist/esm/lib/utils/Pool.js +0 -4
- package/dist/esm/lib/utils/Pool.js.map +1 -1
- package/dist/esm/lib/utils/proxies.js +0 -7
- package/dist/esm/lib/utils/proxies.js.map +1 -1
- package/dist/esm/lib/utils/tiff-utils.js +0 -4
- package/dist/esm/lib/utils/tiff-utils.js.map +1 -1
- package/dist/lib/load-geotiff.js +1 -1
- package/package.json +2 -2
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@@ -35,21 +35,19 @@ var TiffPixelSource = function () {
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var _getRaster = (0, _asyncToGenerator2.default)(_regenerator.default.mark(function _callee(_ref) {
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var selection, signal, image;
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return _regenerator.default.wrap(function _callee$(_context) {
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return _context.stop();
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}
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while (1) switch (_context.prev = _context.next) {
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case 0:
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selection = _ref.selection, signal = _ref.signal;
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_context.next = 3;
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return this._indexer(selection);
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case 3:
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image = _context.sent;
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return _context.abrupt("return", this._readRasters(image, {
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signal: signal
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}));
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case 5:
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case "end":
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return _context.stop();
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}
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}, _callee, this);
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}));
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@@ -64,28 +62,26 @@ var TiffPixelSource = function () {
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var _getTile = (0, _asyncToGenerator2.default)(_regenerator.default.mark(function _callee2(_ref2) {
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var x, y, selection, signal, _this$_getTileExtent, height, width, x0, y0, window, image;
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return _regenerator.default.wrap(function _callee2$(_context2) {
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return _context2.stop();
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}
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while (1) switch (_context2.prev = _context2.next) {
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case 0:
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x = _ref2.x, y = _ref2.y, selection = _ref2.selection, signal = _ref2.signal;
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_this$_getTileExtent = this._getTileExtent(x, y), height = _this$_getTileExtent.height, width = _this$_getTileExtent.width;
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x0 = x * this.tileSize;
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y0 = y * this.tileSize;
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window = [x0, y0, x0 + width, y0 + height];
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_context2.next = 7;
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return this._indexer(selection);
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case 7:
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image = _context2.sent;
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return _context2.abrupt("return", this._readRasters(image, {
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window: window,
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width: width,
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height: height,
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signal: signal
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}));
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case 9:
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case "end":
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return _context2.stop();
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}
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}, _callee2, this);
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}));
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@@ -101,32 +97,30 @@ var TiffPixelSource = function () {
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var _props$signal;
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var interleave, raster, data;
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return _regenerator.default.wrap(function _callee3$(_context3) {
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}
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while (1) switch (_context3.prev = _context3.next) {
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case 0:
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interleave = (0, _tiffUtils.isInterleaved)(this.shape);
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_context3.next = 3;
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return image.readRasters(_objectSpread({
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interleave: interleave
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}, props));
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case 3:
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raster = _context3.sent;
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if (!(props !== null && props !== void 0 && (_props$signal = props.signal) !== null && _props$signal !== void 0 && _props$signal.aborted)) {
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_context3.next = 6;
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break;
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}
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throw _tiffUtils.SIGNAL_ABORTED;
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case 6:
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data = interleave ? raster : raster[0];
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return _context3.abrupt("return", {
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data: data,
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width: raster.width,
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height: raster.height
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});
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case 8:
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case "end":
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return _context3.stop();
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}
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}, _callee3, this);
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}));
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}()
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}, {
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key: "_getTileExtent",
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value:
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function _getTileExtent(x, y) {
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value: function _getTileExtent(x, y) {
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var _getImageSize = (0, _tiffUtils.getImageSize)(this),
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zoomLevelHeight = _getImageSize.height,
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zoomLevelWidth = _getImageSize.width;
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{"version":3,"file":"tiff-pixel-source.js","names":["TiffPixelSource","indexer","dtype","tileSize","shape","labels","meta","_indexer","selection","signal","image","_readRasters","x","y","_getTileExtent","height","width","x0","y0","window","props","interleave","
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{"version":3,"file":"tiff-pixel-source.js","names":["_tiffUtils","require","ownKeys","object","enumerableOnly","keys","Object","getOwnPropertySymbols","symbols","filter","sym","getOwnPropertyDescriptor","enumerable","push","apply","_objectSpread","target","i","arguments","length","source","forEach","key","_defineProperty2","default","getOwnPropertyDescriptors","defineProperties","defineProperty","TiffPixelSource","indexer","dtype","tileSize","shape","labels","meta","_classCallCheck2","_indexer","_createClass2","value","_getRaster","_asyncToGenerator2","_regenerator","mark","_callee","_ref","selection","signal","image","wrap","_callee$","_context","prev","next","sent","abrupt","_readRasters","stop","getRaster","_x","_getTile","_callee2","_ref2","x","y","_this$_getTileExtent","height","width","x0","y0","window","_callee2$","_context2","_getTileExtent","getTile","_x2","_readRasters2","_callee3","props","_props$signal","interleave","raster","data","_callee3$","_context3","isInterleaved","readRasters","aborted","SIGNAL_ABORTED","_x3","_x4","_getImageSize","getImageSize","zoomLevelHeight","zoomLevelWidth","maxXTileCoord","Math","floor","maxYTileCoord","onTileError","err","console","error","_default","exports"],"sources":["../../../src/lib/tiff-pixel-source.ts"],"sourcesContent":["import type {GeoTIFFImage, RasterOptions} from 'geotiff';\nimport {getImageSize, isInterleaved, SIGNAL_ABORTED} from './utils/tiff-utils';\n\nimport type {\n PixelSource,\n PixelSourceSelection,\n PixelSourceMeta,\n Dtype,\n Labels,\n RasterSelection,\n TileSelection,\n PixelData,\n TypedArray\n} from '../types';\n\nclass TiffPixelSource<S extends string[]> implements PixelSource<S> {\n public dtype: Dtype;\n public tileSize: number;\n public shape: number[];\n public labels: Labels<S>;\n public meta: PixelSourceMeta | undefined;\n private _indexer: (sel: PixelSourceSelection<S>) => Promise<GeoTIFFImage>;\n\n // eslint-disable-next-line max-params\n constructor(\n indexer: (sel: PixelSourceSelection<S>) => Promise<GeoTIFFImage>,\n dtype: Dtype,\n tileSize: number,\n shape: number[],\n labels: Labels<S>,\n meta?: PixelSourceMeta\n ) {\n this._indexer = indexer;\n this.dtype = dtype;\n this.tileSize = tileSize;\n this.shape = shape;\n this.labels = labels;\n this.meta = meta;\n }\n\n async getRaster({selection, signal}: RasterSelection<S>) {\n const image = await this._indexer(selection);\n return this._readRasters(image, {signal});\n }\n\n async getTile({x, y, selection, signal}: TileSelection<S>) {\n const {height, width} = this._getTileExtent(x, y);\n const x0 = x * this.tileSize;\n const y0 = y * this.tileSize;\n const window = [x0, y0, x0 + width, y0 + height];\n\n const image = await this._indexer(selection);\n return this._readRasters(image, {window, width, height, signal});\n }\n\n private async _readRasters(image: GeoTIFFImage, props?: RasterOptions) {\n const interleave = isInterleaved(this.shape);\n const raster = await image.readRasters({interleave, ...props});\n\n if (props?.signal?.aborted) {\n throw SIGNAL_ABORTED;\n }\n\n /*\n * geotiff.js returns objects with different structure\n * depending on `interleave`. It's weird, but this seems to work.\n */\n const data = (interleave ? raster : raster[0]) as TypedArray;\n return {\n data,\n width: raster.width,\n height: raster.height\n } as PixelData;\n }\n\n /*\n * Computes tile size given x, y coord.\n */\n private _getTileExtent(x: number, y: number) {\n const {height: zoomLevelHeight, width: zoomLevelWidth} = getImageSize(this);\n let height = this.tileSize;\n let width = this.tileSize;\n const maxXTileCoord = Math.floor(zoomLevelWidth / this.tileSize);\n const maxYTileCoord = Math.floor(zoomLevelHeight / this.tileSize);\n if (x === maxXTileCoord) {\n width = zoomLevelWidth % this.tileSize;\n }\n if (y === maxYTileCoord) {\n height = zoomLevelHeight % this.tileSize;\n }\n return {height, width};\n }\n\n onTileError(err: Error) {\n console.error(err); // eslint-disable-line no-console\n }\n}\n\nexport default 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{"version":3,"file":"Pool.js","names":["defaultPoolSize","globalThis","navigator","hardwareConcurrency","Pool","size","workers","idleWorkers","waitQueue","decoder","i","w","Worker","push","fileDirectory","buffer","
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{"version":3,"file":"Pool.js","names":["defaultPoolSize","_globalThis$navigator","globalThis","_globalThis$navigator2","navigator","hardwareConcurrency","Pool","size","arguments","length","undefined","_classCallCheck2","default","_defineProperty2","workers","idleWorkers","waitQueue","decoder","i","w","Worker","push","_createClass2","key","value","_decode","_asyncToGenerator2","_regenerator","mark","_callee","fileDirectory","buffer","_this","currentWorker","wrap","_callee$","_context","prev","next","waitForWorker","sent","abrupt","Promise","resolve","reject","onmessage","event","finishTask","data","onerror","error","postMessage","stop","decode","_x","_x2","apply","_waitForWorker","_callee2","idleWorker","waiter","promise","_callee2$","_context2","pop","_finishTask","_callee3","_callee3$","_context3","_x3","destroy","terminate","exports"],"sources":["../../../../src/lib/utils/Pool.ts"],"sourcesContent":["/** eslint-disable */\nimport type {FileDirectory} from 'geotiff';\n\n// import Worker from 'web-worker:./decoder.worker.ts';\n\n// https://developer.mozilla.org/en-US/docs/Web/API/NavigatorConcurrentHardware/hardwareConcurrency\n// We need to give a different way of getting this for safari, so 4 is probably a safe bet\n// for parallel processing in the meantime. More can't really hurt since they'll just block\n// each other and not the UI thread, which is the real benefit.\nconst defaultPoolSize = globalThis?.navigator?.hardwareConcurrency ?? 4;\n\n/**\n * Pool for workers to decode chunks of the images.\n * This is a line-for-line copy of GeoTIFFs old implementation: https://github.com/geotiffjs/geotiff.js/blob/v1.0.0-beta.6/src/pool.js\n */\nexport default class Pool {\n workers: Worker[];\n idleWorkers: Worker[];\n waitQueue: any[];\n decoder: null;\n\n /**\n * @constructor\n * @param {Number} size The size of the pool. Defaults to the number of CPUs\n * available. When this parameter is `null` or 0, then the\n * decoding will be done in the main thread.\n */\n constructor(size = defaultPoolSize) {\n this.workers = [];\n this.idleWorkers = [];\n this.waitQueue = [];\n this.decoder = null;\n\n // eslint-disable-next-line no-plusplus\n for (let i = 0; i < size; ++i) {\n const w = new Worker('./decoder.worker');\n this.workers.push(w);\n this.idleWorkers.push(w);\n }\n }\n\n /**\n * Decode the given block of bytes with the set compression method.\n * @param {ArrayBuffer} buffer the array buffer of bytes to decode.\n * @returns {Promise.<ArrayBuffer>} the decoded result as a `Promise`\n */\n async decode(fileDirectory: FileDirectory, buffer: ArrayBuffer) {\n const currentWorker = await this.waitForWorker();\n return new Promise((resolve, reject) => {\n currentWorker.onmessage = (event) => {\n // this.workers.push(currentWorker);\n // eslint-disable-next-line\n this.finishTask(currentWorker);\n resolve(event.data[0]);\n };\n currentWorker.onerror = (error) => {\n // this.workers.push(currentWorker);\n // eslint-disable-next-line\n this.finishTask(currentWorker);\n reject(error);\n };\n currentWorker.postMessage(['decode', fileDirectory, buffer], [buffer]);\n });\n }\n\n async waitForWorker() {\n const idleWorker = this.idleWorkers.pop();\n if (idleWorker) {\n return idleWorker;\n }\n const waiter: any = {};\n const promise = new Promise((resolve) => {\n waiter.resolve = resolve;\n });\n\n this.waitQueue.push(waiter);\n return promise as Promise<Worker>;\n }\n\n async finishTask(currentWorker: Worker) {\n const waiter = this.waitQueue.pop();\n if (waiter) {\n waiter.resolve(currentWorker);\n } else {\n this.idleWorkers.push(currentWorker);\n }\n }\n\n destroy() {\n // eslint-disable-next-line no-plusplus\n for (let i = 0; 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{"version":3,"file":"proxies.js","names":["VIV_PROXY_KEY","OFFSETS_PROXY_KEY","POOL_PROXY_KEY","checkProxies","tiff","isProxy","console","warn","proxyFlag","createOffsetsProxy","offsets","get","target","key","index","ifdRequests","offset","parseFileDirectoryAt","getImage","Reflect","Proxy","createPoolProxy","pool","options","readRasters"],"sources":["../../../../src/lib/utils/proxies.ts"],"sourcesContent":["import type {GeoTIFF} from 'geotiff';\nimport type Pool from './Pool';\n\nconst VIV_PROXY_KEY = '__viv';\nconst OFFSETS_PROXY_KEY = `${VIV_PROXY_KEY}-offsets` as const;\nconst POOL_PROXY_KEY = `${VIV_PROXY_KEY}-decoder-pool` as const;\n\n/*\n * Inspect if the GeoTIFF source is wrapped in our proxies,\n * and warn if missing.\n */\nexport function checkProxies(tiff: GeoTIFF) {\n if (!isProxy(tiff, OFFSETS_PROXY_KEY)) {\n console.warn('GeoTIFF source is missing offsets proxy.'); // eslint-disable-line no-console\n }\n\n if (!isProxy(tiff, POOL_PROXY_KEY)) {\n console.warn('GeoTIFF source is missing decoder-pool proxy.'); // eslint-disable-line no-console\n }\n}\n\n/*\n * > isProxy(tiff, POOL_PROXY_KEY) === true; // false\n * > tiff = createPoolProxy(tiff, new Pool());\n * > isProxy(tiff, POOL_PROXY_KEY) === true; // true\n */\nfunction isProxy(tiff: GeoTIFF, proxyFlag: string) {\n return (tiff as any)[proxyFlag] as boolean;\n}\n\n/*\n * Creates an ES6 Proxy that wraps a GeoTIFF object. The proxy\n * handler intercepts calls to `tiff.getImage` and uses our custom\n * pre-computed offsets to pre-fetch the correct file directory.\n *\n * This is a bit of a hack. Internally GeoTIFF inspects `this.ifdRequests`\n * to see which fileDirectories need to be traversed. By adding the\n * ifdRequest for an 'index' manually, GeoTIFF will await that request\n * rather than traversing the file system remotely.\n */\nexport function createOffsetsProxy(tiff: GeoTIFF, offsets: number[]) {\n const get = (target: GeoTIFF, key: any) => {\n // Intercept `tiff.getImage`\n if (key === 'getImage') {\n return (index: number) => {\n // Manually add ifdRequest to tiff if missing and we have an offset.\n if (!(index in target.ifdRequests) && index in offsets) {\n const offset = offsets[index];\n target.ifdRequests[index] = target.parseFileDirectoryAt(offset);\n }\n return target.getImage(index);\n };\n }\n\n // tiff['__viv-offsets'] === true\n if (key === OFFSETS_PROXY_KEY) {\n return true;\n }\n\n return Reflect.get(target, key);\n };\n return new Proxy(tiff, {get});\n}\n\n/*\n * Creates an ES6 Proxy that wraps a GeoTIFF object. The proxy\n * handler intercepts calls to `tiff.readRasters` and injects\n * a pool argument to every call. This means our TiffPixelSource\n * doesn't need to be aware of whether a decoder pool is in use.\n *\n * > tiff.readRasters({ window }) -> tiff.readRasters({ window, pool });\n */\nexport function createPoolProxy(tiff: GeoTIFF, pool: Pool) {\n const get = (target: GeoTIFF, key: any) => {\n // Intercept calls to `image.readRasters`\n if (key === 'readRasters') {\n return (options: Parameters<typeof target.readRasters>) => {\n // Inject `pool` argument with other raster options.\n // @ts-ignore\n return target.readRasters({...options, pool});\n };\n }\n\n // tiff['__viv-decoder-pool'] === true\n if (key === POOL_PROXY_KEY) {\n return true;\n }\n\n return Reflect.get(target, key);\n };\n return new Proxy(tiff, {get});\n}\n"],"mappings":";;;;;;;;;;;;AAGA,IAAMA,aAAa,GAAG,OAAO;AAC7B,IAAMC,iBAAiB,
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{"version":3,"file":"proxies.js","names":["VIV_PROXY_KEY","OFFSETS_PROXY_KEY","concat","POOL_PROXY_KEY","checkProxies","tiff","isProxy","console","warn","proxyFlag","createOffsetsProxy","offsets","get","target","key","index","ifdRequests","offset","parseFileDirectoryAt","getImage","Reflect","Proxy","createPoolProxy","pool","options","readRasters","_objectSpread"],"sources":["../../../../src/lib/utils/proxies.ts"],"sourcesContent":["import type {GeoTIFF} from 'geotiff';\nimport type Pool from './Pool';\n\nconst VIV_PROXY_KEY = '__viv';\nconst OFFSETS_PROXY_KEY = `${VIV_PROXY_KEY}-offsets` as const;\nconst POOL_PROXY_KEY = `${VIV_PROXY_KEY}-decoder-pool` as const;\n\n/*\n * Inspect if the GeoTIFF source is wrapped in our proxies,\n * and warn if missing.\n */\nexport function checkProxies(tiff: GeoTIFF) {\n if (!isProxy(tiff, OFFSETS_PROXY_KEY)) {\n console.warn('GeoTIFF source is missing offsets proxy.'); // eslint-disable-line no-console\n }\n\n if (!isProxy(tiff, POOL_PROXY_KEY)) {\n console.warn('GeoTIFF source is missing decoder-pool proxy.'); // eslint-disable-line no-console\n }\n}\n\n/*\n * > isProxy(tiff, POOL_PROXY_KEY) === true; // false\n * > tiff = createPoolProxy(tiff, new Pool());\n * > isProxy(tiff, POOL_PROXY_KEY) === true; // true\n */\nfunction isProxy(tiff: GeoTIFF, proxyFlag: string) {\n return (tiff as any)[proxyFlag] as boolean;\n}\n\n/*\n * Creates an ES6 Proxy that wraps a GeoTIFF object. The proxy\n * handler intercepts calls to `tiff.getImage` and uses our custom\n * pre-computed offsets to pre-fetch the correct file directory.\n *\n * This is a bit of a hack. Internally GeoTIFF inspects `this.ifdRequests`\n * to see which fileDirectories need to be traversed. By adding the\n * ifdRequest for an 'index' manually, GeoTIFF will await that request\n * rather than traversing the file system remotely.\n */\nexport function createOffsetsProxy(tiff: GeoTIFF, offsets: number[]) {\n const get = (target: GeoTIFF, key: any) => {\n // Intercept `tiff.getImage`\n if (key === 'getImage') {\n return (index: number) => {\n // Manually add ifdRequest to tiff if missing and we have an offset.\n if (!(index in target.ifdRequests) && index in offsets) {\n const offset = offsets[index];\n target.ifdRequests[index] = target.parseFileDirectoryAt(offset);\n }\n return target.getImage(index);\n };\n }\n\n // tiff['__viv-offsets'] === true\n if (key === OFFSETS_PROXY_KEY) {\n return true;\n }\n\n return Reflect.get(target, key);\n };\n return new Proxy(tiff, {get});\n}\n\n/*\n * Creates an ES6 Proxy that wraps a GeoTIFF object. The proxy\n * handler intercepts calls to `tiff.readRasters` and injects\n * a pool argument to every call. This means our TiffPixelSource\n * doesn't need to be aware of whether a decoder pool is in use.\n *\n * > tiff.readRasters({ window }) -> tiff.readRasters({ window, pool });\n */\nexport function createPoolProxy(tiff: GeoTIFF, pool: Pool) {\n const get = (target: GeoTIFF, key: any) => {\n // Intercept calls to `image.readRasters`\n if (key === 'readRasters') {\n return (options: Parameters<typeof target.readRasters>) => {\n // Inject `pool` argument with other raster options.\n // @ts-ignore\n return target.readRasters({...options, pool});\n };\n }\n\n // tiff['__viv-decoder-pool'] === true\n if (key === POOL_PROXY_KEY) {\n return true;\n }\n\n return Reflect.get(target, key);\n };\n return new Proxy(tiff, {get});\n}\n"],"mappings":";;;;;;;;;;;;AAGA,IAAMA,aAAa,GAAG,OAAO;AAC7B,IAAMC,iBAAiB,MAAAC,MAAA,CAAMF,aAAa,aAAmB;AAC7D,IAAMG,cAAc,MAAAD,MAAA,CAAMF,aAAa,kBAAwB;AAMxD,SAASI,YAAYA,CAACC,IAAa,EAAE;EAC1C,IAAI,CAACC,OAAO,CAACD,IAAI,EAAEJ,iBAAiB,CAAC,EAAE;IACrCM,OAAO,CAACC,IAAI,CAAC,0CAA0C,CAAC;EAC1D;EAEA,IAAI,CAACF,OAAO,CAACD,IAAI,EAAEF,cAAc,CAAC,EAAE;IAClCI,OAAO,CAACC,IAAI,CAAC,+CAA+C,CAAC;EAC/D;AACF;AAOA,SAASF,OAAOA,CAACD,IAAa,EAAEI,SAAiB,EAAE;EACjD,OAAQJ,IAAI,CAASI,SAAS,CAAC;AACjC;AAYO,SAASC,kBAAkBA,CAACL,IAAa,EAAEM,OAAiB,EAAE;EACnE,IAAMC,GAAG,GAAG,SAANA,GAAGA,CAAIC,MAAe,EAAEC,GAAQ,EAAK;IAEzC,IAAIA,GAAG,KAAK,UAAU,EAAE;MACtB,OAAO,UAACC,KAAa,EAAK;QAExB,IAAI,EAAEA,KAAK,IAAIF,MAAM,CAACG,WAAW,CAAC,IAAID,KAAK,IAAIJ,OAAO,EAAE;UACtD,IAAMM,MAAM,GAAGN,OAAO,CAACI,KAAK,CAAC;UAC7BF,MAAM,CAACG,WAAW,CAACD,KAAK,CAAC,GAAGF,MAAM,CAACK,oBAAoB,CAACD,MAAM,CAAC;QACjE;QACA,OAAOJ,MAAM,CAACM,QAAQ,CAACJ,KAAK,CAAC;MAC/B,CAAC;IACH;IAGA,IAAID,GAAG,KAAKb,iBAAiB,EAAE;MAC7B,OAAO,IAAI;IACb;IAEA,OAAOmB,OAAO,CAACR,GAAG,CAACC,MAAM,EAAEC,GAAG,CAAC;EACjC,CAAC;EACD,OAAO,IAAIO,KAAK,CAAChB,IAAI,EAAE;IAACO,GAAG,EAAHA;EAAG,CAAC,CAAC;AAC/B;AAUO,SAASU,eAAeA,CAACjB,IAAa,EAAEkB,IAAU,EAAE;EACzD,IAAMX,GAAG,GAAG,SAANA,GAAGA,CAAIC,MAAe,EAAEC,GAAQ,EAAK;IAEzC,IAAIA,GAAG,KAAK,aAAa,EAAE;MACzB,OAAO,UAACU,OAA8C,EAAK;QAGzD,OAAOX,MAAM,CAACY,WAAW,CAAAC,aAAA,CAAAA,aAAA,KAAKF,OAAO;UAAED,IAAI,EAAJA;QAAI,GAAE;MAC/C,CAAC;IACH;IAGA,IAAIT,GAAG,KAAKX,cAAc,EAAE;MAC1B,OAAO,IAAI;IACb;IAEA,OAAOiB,OAAO,CAACR,GAAG,CAACC,MAAM,EAAEC,GAAG,CAAC;EACjC,CAAC;EACD,OAAO,IAAIO,KAAK,CAAChB,IAAI,EAAE;IAACO,GAAG,EAAHA;EAAG,CAAC,CAAC;AAC/B"}
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{"version":3,"file":"tiff-utils.js","names":["ensureArray","x","Array","isArray","intToRgba","int","Number","isInteger","Error","buffer","ArrayBuffer","view","DataView","setInt32","bytes","Uint8Array","from","isInterleaved","shape","lastDimSize","length","getImageSize","source","interleaved","slice","height","width","SIGNAL_ABORTED"],"sources":["../../../../src/lib/utils/tiff-utils.ts"],"sourcesContent":["import type {PixelSource} from '../../types';\n\nexport function ensureArray<T>(x: T | T[]) {\n return Array.isArray(x) ? x : [x];\n}\n\n/*\n * Converts 32-bit integer color representation to RGBA tuple.\n * Used to serialize colors from OME-XML metadata.\n *\n * > console.log(intToRgba(100100));\n * > // [0, 1, 135, 4]\n */\nexport function intToRgba(int: number) {\n if (!Number.isInteger(int)) {\n throw Error('Not an integer.');\n }\n\n // Write number to int32 representation (4 bytes).\n const buffer = new ArrayBuffer(4);\n const view = new DataView(buffer);\n view.setInt32(0, int, false); // offset === 0, littleEndian === false\n\n // Take u8 view and extract number for each byte (1 byte for R/G/B/A).\n const bytes = new Uint8Array(buffer);\n return Array.from(bytes) as [number, number, number, number];\n}\n\n/*\n * Helper method to determine whether pixel data is interleaved or not.\n * > isInterleaved([1, 24, 24]) === false;\n * > isInterleaved([1, 24, 24, 3]) === true;\n */\nexport function isInterleaved(shape: number[]) {\n const lastDimSize = shape[shape.length - 1];\n return lastDimSize === 3 || lastDimSize === 4;\n}\n\nexport function getImageSize<T extends string[]>(source: PixelSource<T>) {\n const interleaved = isInterleaved(source.shape);\n const [height, width] = source.shape.slice(interleaved ? -3 : -2);\n return {height, width};\n}\n\nexport const SIGNAL_ABORTED = '__vivSignalAborted';\n"],"mappings":";;;;;;;;;;;;AAEO,SAASA,
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{"version":3,"file":"tiff-utils.js","names":["ensureArray","x","Array","isArray","intToRgba","int","Number","isInteger","Error","buffer","ArrayBuffer","view","DataView","setInt32","bytes","Uint8Array","from","isInterleaved","shape","lastDimSize","length","getImageSize","source","interleaved","_source$shape$slice","slice","_source$shape$slice2","_slicedToArray2","default","height","width","SIGNAL_ABORTED","exports"],"sources":["../../../../src/lib/utils/tiff-utils.ts"],"sourcesContent":["import type {PixelSource} from '../../types';\n\nexport function ensureArray<T>(x: T | T[]) {\n return Array.isArray(x) ? x : [x];\n}\n\n/*\n * Converts 32-bit integer color representation to RGBA tuple.\n * Used to serialize colors from OME-XML metadata.\n *\n * > console.log(intToRgba(100100));\n * > // [0, 1, 135, 4]\n */\nexport function intToRgba(int: number) {\n if (!Number.isInteger(int)) {\n throw Error('Not an integer.');\n }\n\n // Write number to int32 representation (4 bytes).\n const buffer = new ArrayBuffer(4);\n const view = new DataView(buffer);\n view.setInt32(0, int, false); // offset === 0, littleEndian === false\n\n // Take u8 view and extract number for each byte (1 byte for R/G/B/A).\n const bytes = new Uint8Array(buffer);\n return Array.from(bytes) as [number, number, number, number];\n}\n\n/*\n * Helper method to determine whether pixel data is interleaved or not.\n * > isInterleaved([1, 24, 24]) === false;\n * > isInterleaved([1, 24, 24, 3]) === true;\n */\nexport function isInterleaved(shape: number[]) {\n const lastDimSize = shape[shape.length - 1];\n return lastDimSize === 3 || lastDimSize === 4;\n}\n\nexport function getImageSize<T extends string[]>(source: PixelSource<T>) {\n const interleaved = isInterleaved(source.shape);\n const [height, width] = source.shape.slice(interleaved ? -3 : -2);\n return {height, width};\n}\n\nexport const SIGNAL_ABORTED = '__vivSignalAborted';\n"],"mappings":";;;;;;;;;;;;AAEO,SAASA,WAAWA,CAAIC,CAAU,EAAE;EACzC,OAAOC,KAAK,CAACC,OAAO,CAACF,CAAC,CAAC,GAAGA,CAAC,GAAG,CAACA,CAAC,CAAC;AACnC;AASO,SAASG,SAASA,CAACC,GAAW,EAAE;EACrC,IAAI,CAACC,MAAM,CAACC,SAAS,CAACF,GAAG,CAAC,EAAE;IAC1B,MAAMG,KAAK,CAAC,iBAAiB,CAAC;EAChC;EAGA,IAAMC,MAAM,GAAG,IAAIC,WAAW,CAAC,CAAC,CAAC;EACjC,IAAMC,IAAI,GAAG,IAAIC,QAAQ,CAACH,MAAM,CAAC;EACjCE,IAAI,CAACE,QAAQ,CAAC,CAAC,EAAER,GAAG,EAAE,KAAK,CAAC;EAG5B,IAAMS,KAAK,GAAG,IAAIC,UAAU,CAACN,MAAM,CAAC;EACpC,OAAOP,KAAK,CAACc,IAAI,CAACF,KAAK,CAAC;AAC1B;AAOO,SAASG,aAAaA,CAACC,KAAe,EAAE;EAC7C,IAAMC,WAAW,GAAGD,KAAK,CAACA,KAAK,CAACE,MAAM,GAAG,CAAC,CAAC;EAC3C,OAAOD,WAAW,KAAK,CAAC,IAAIA,WAAW,KAAK,CAAC;AAC/C;AAEO,SAASE,YAAYA,CAAqBC,MAAsB,EAAE;EACvE,IAAMC,WAAW,GAAGN,aAAa,CAACK,MAAM,CAACJ,KAAK,CAAC;EAC/C,IAAAM,mBAAA,GAAwBF,MAAM,CAACJ,KAAK,CAACO,KAAK,CAACF,WAAW,GAAG,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC;IAAAG,oBAAA,OAAAC,eAAA,CAAAC,OAAA,EAAAJ,mBAAA;IAA1DK,MAAM,GAAAH,oBAAA;IAAEI,KAAK,GAAAJ,oBAAA;EACpB,OAAO;IAACG,MAAM,EAANA,MAAM;IAAEC,KAAK,EAALA;EAAK,CAAC;AACxB;AAEO,IAAMC,cAAc,GAAG,oBAAoB;AAACC,OAAA,CAAAD,cAAA,GAAAA,cAAA"}
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{"version":3,"file":"load-geotiff.js","names":["fromUrl","fromBlob","GeoTIFF","createOffsetsProxy","checkProxies","loadOmeTiff","isOmeTiff","loadGeoTiff","source","opts","headers","offsets","tiff","firstImage","getImage","Error"],"sources":["../../../src/lib/load-geotiff.ts"],"sourcesContent":["import {fromUrl, fromBlob, GeoTIFF} from 'geotiff';\n\nimport {\n // createPoolProxy,\n createOffsetsProxy,\n checkProxies\n} from './utils/proxies';\n// import Pool from './lib/Pool';\n\nimport {loadOmeTiff, isOmeTiff} from './ome/load-ome-tiff';\nimport type TiffPixelSource from './tiff-pixel-source';\n\n/** Options for initializing a tiff pixel source. */\ninterface GeoTIFFOptions {\n /** Headers passed to each underlying request. */\n headers?: Record<string, unknown>;\n /** Performance enhancment to index the remote tiff source using pre-computed byte-offsets. Generated via https://github.com/ilan-gold/generate-tiff-offsets */\n offsets?: number[];\n /** Indicates whether a multi-threaded pool of image decoders should be used to decode tiles. */\n pool?: boolean;\n}\n\ninterface GeoTIFFData {\n data: TiffPixelSource<string[]>[];\n metadata: Record<string, unknown>;\n}\n\n/**\n * Opens an OME-TIFF via URL and returns data source and associated metadata for first image.\n *\n * @param source url string, File/Blob object, or GeoTIFF object\n * @param opts options for initializing a tiff pixel source.\n * - `opts.headers` are passed to each underlying fetch request.\n * - `opts.offsets` are a performance enhancment to index the remote tiff source using pre-computed byte-offsets.\n * - `opts.pool` indicates whether a multi-threaded pool of image decoders should be used to decode tiles (default = true).\n * @return data source and associated OME-Zarr metadata.\n */\nexport async function loadGeoTiff(\n source: string | Blob | GeoTIFF,\n opts: GeoTIFFOptions = {}\n): Promise<GeoTIFFData> {\n const {headers, offsets} = opts;\n\n // Create tiff source\n let tiff: GeoTIFF;\n if (source instanceof GeoTIFF) {\n tiff = source;\n } else if (typeof source === 'string') {\n tiff = await fromUrl(source, headers);\n } else {\n tiff = await fromBlob(source);\n }\n\n // if (pool) {\n /*\n * Creates a worker pool to decode tiff tiles. Wraps tiff\n * in a Proxy that injects 'pool' into `tiff.readRasters`.\n */\n // tiff = createPoolProxy(tiff, new Pool());\n // }\n\n if (offsets) {\n /*\n * Performance enhancement. If offsets are provided, we\n * create a proxy that intercepts calls to `tiff.getImage`\n * and injects the pre-computed offsets.\n */\n tiff = createOffsetsProxy(tiff, offsets);\n }\n\n /*\n * Inspect tiff source for our performance enhancing proxies.\n * Prints warnings to console if `offsets` or `pool` are missing.\n */\n checkProxies(tiff);\n\n const firstImage = await tiff.getImage(0);\n\n if (isOmeTiff(firstImage)) {\n return loadOmeTiff(tiff, firstImage);\n }\n\n throw new Error('GeoTIFF not recognized.');\n}\n"],"mappings":"AAAA,SAAQA,OAAO,EAAEC,QAAQ,EAAEC,OAAO,QAAO,SAAS;AAElD
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{"version":3,"file":"load-geotiff.js","names":["fromUrl","fromBlob","GeoTIFF","createOffsetsProxy","checkProxies","loadOmeTiff","isOmeTiff","loadGeoTiff","source","opts","arguments","length","undefined","headers","offsets","tiff","firstImage","getImage","Error"],"sources":["../../../src/lib/load-geotiff.ts"],"sourcesContent":["import {fromUrl, fromBlob, GeoTIFF} from 'geotiff';\n\nimport {\n // createPoolProxy,\n createOffsetsProxy,\n checkProxies\n} from './utils/proxies';\n// import Pool from './lib/Pool';\n\nimport {loadOmeTiff, isOmeTiff} from './ome/load-ome-tiff';\nimport type TiffPixelSource from './tiff-pixel-source';\n\n/** Options for initializing a tiff pixel source. */\ninterface GeoTIFFOptions {\n /** Headers passed to each underlying request. */\n headers?: Record<string, unknown>;\n /** Performance enhancment to index the remote tiff source using pre-computed byte-offsets. Generated via https://github.com/ilan-gold/generate-tiff-offsets */\n offsets?: number[];\n /** Indicates whether a multi-threaded pool of image decoders should be used to decode tiles. */\n pool?: boolean;\n}\n\ninterface GeoTIFFData {\n data: TiffPixelSource<string[]>[];\n metadata: Record<string, unknown>;\n}\n\n/**\n * Opens an OME-TIFF via URL and returns data source and associated metadata for first image.\n *\n * @param source url string, File/Blob object, or GeoTIFF object\n * @param opts options for initializing a tiff pixel source.\n * - `opts.headers` are passed to each underlying fetch request.\n * - `opts.offsets` are a performance enhancment to index the remote tiff source using pre-computed byte-offsets.\n * - `opts.pool` indicates whether a multi-threaded pool of image decoders should be used to decode tiles (default = true).\n * @return data source and associated OME-Zarr metadata.\n */\nexport async function loadGeoTiff(\n source: string | Blob | GeoTIFF,\n opts: GeoTIFFOptions = {}\n): Promise<GeoTIFFData> {\n const {headers, offsets} = opts;\n\n // Create tiff source\n let tiff: GeoTIFF;\n if (source instanceof GeoTIFF) {\n tiff = source;\n } else if (typeof source === 'string') {\n tiff = await fromUrl(source, headers);\n } else {\n tiff = await fromBlob(source);\n }\n\n // if (pool) {\n /*\n * Creates a worker pool to decode tiff tiles. Wraps tiff\n * in a Proxy that injects 'pool' into `tiff.readRasters`.\n */\n // tiff = createPoolProxy(tiff, new Pool());\n // }\n\n if (offsets) {\n /*\n * Performance enhancement. If offsets are provided, we\n * create a proxy that intercepts calls to `tiff.getImage`\n * and injects the pre-computed offsets.\n */\n tiff = createOffsetsProxy(tiff, offsets);\n }\n\n /*\n * Inspect tiff source for our performance enhancing proxies.\n * Prints warnings to console if `offsets` or `pool` are missing.\n */\n checkProxies(tiff);\n\n const firstImage = await tiff.getImage(0);\n\n if (isOmeTiff(firstImage)) {\n return loadOmeTiff(tiff, firstImage);\n }\n\n throw new Error('GeoTIFF not recognized.');\n}\n"],"mappings":"AAAA,SAAQA,OAAO,EAAEC,QAAQ,EAAEC,OAAO,QAAO,SAAS;AAElD,SAEEC,kBAAkB,EAClBC,YAAY,QACP,iBAAiB;AAGxB,SAAQC,WAAW,EAAEC,SAAS,QAAO,qBAAqB;AA4B1D,OAAO,eAAeC,WAAWA,CAC/BC,MAA+B,EAET;EAAA,IADtBC,IAAoB,GAAAC,SAAA,CAAAC,MAAA,QAAAD,SAAA,QAAAE,SAAA,GAAAF,SAAA,MAAG,CAAC,CAAC;EAEzB,MAAM;IAACG,OAAO;IAAEC;EAAO,CAAC,GAAGL,IAAI;EAG/B,IAAIM,IAAa;EACjB,IAAIP,MAAM,YAAYN,OAAO,EAAE;IAC7Ba,IAAI,GAAGP,MAAM;EACf,CAAC,MAAM,IAAI,OAAOA,MAAM,KAAK,QAAQ,EAAE;IACrCO,IAAI,GAAG,MAAMf,OAAO,CAACQ,MAAM,EAAEK,OAAO,CAAC;EACvC,CAAC,MAAM;IACLE,IAAI,GAAG,MAAMd,QAAQ,CAACO,MAAM,CAAC;EAC/B;EAUA,IAAIM,OAAO,EAAE;IAMXC,IAAI,GAAGZ,kBAAkB,CAACY,IAAI,EAAED,OAAO,CAAC;EAC1C;EAMAV,YAAY,CAACW,IAAI,CAAC;EAElB,MAAMC,UAAU,GAAG,MAAMD,IAAI,CAACE,QAAQ,CAAC,CAAC,CAAC;EAEzC,IAAIX,SAAS,CAACU,UAAU,CAAC,EAAE;IACzB,OAAOX,WAAW,CAACU,IAAI,EAAEC,UAAU,CAAC;EACtC;EAEA,MAAM,IAAIE,KAAK,CAAC,yBAAyB,CAAC;AAC5C"}
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let pyramidIndexer;
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if (SubIFDs) {
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@@ -20,7 +19,6 @@ export async function loadOmeTiff(tiff, firstImage) {
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levels = omexml.length;
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pyramidIndexer = getOmeLegacyIndexer(tiff, omexml);
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}
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-
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const imgMeta = omexml[0];
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const {
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labels,
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@@ -1 +1 @@
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1
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-
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1
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+
{"version":3,"file":"load-ome-tiff.js","names":["TiffPixelSource","getOmeLegacyIndexer","getOmeSubIFDIndexer","getOmePixelSourceMeta","fromString","isOmeTiff","img","fileDirectory","ImageDescription","includes","loadOmeTiff","tiff","firstImage","SubIFDs","PhotometricInterpretation","photometricInterpretation","omexml","levels","pyramidIndexer","length","imgMeta","labels","getShape","physicalSizes","dtype","tileSize","getTileWidth","meta","data","Array","from","map","_","resolution","shape","indexer","sel","source","metadata"],"sources":["../../../../src/lib/ome/load-ome-tiff.ts"],"sourcesContent":["import type {GeoTIFF, GeoTIFFImage} from 'geotiff';\n\nimport TiffPixelSource from '../tiff-pixel-source';\nimport {getOmeLegacyIndexer, getOmeSubIFDIndexer, OmeTiffIndexer} from './ome-indexers';\nimport {getOmePixelSourceMeta} from './ome-utils';\nimport {fromString} from './omexml';\nimport type {OmeTiffSelection} from './ome-indexers';\n\nexport const isOmeTiff = (img: GeoTIFFImage) => img.fileDirectory.ImageDescription.includes('<OME');\n\nexport async function loadOmeTiff(tiff: GeoTIFF, firstImage: GeoTIFFImage) {\n // Get first image from tiff and inspect OME-XML metadata\n const {\n ImageDescription,\n SubIFDs,\n PhotometricInterpretation: photometricInterpretation\n } = firstImage.fileDirectory;\n const omexml = fromString(ImageDescription);\n\n /*\n * Image pyramids are stored differently between versions of Bioformats.\n * Thus we need a different indexer depending on which format we have.\n */\n let levels: number;\n let pyramidIndexer: OmeTiffIndexer;\n\n if (SubIFDs) {\n // Image is >= Bioformats 6.0 and resolutions are stored using SubIFDs.\n levels = SubIFDs.length + 1;\n pyramidIndexer = getOmeSubIFDIndexer(tiff, omexml);\n } else {\n // Image is legacy format; resolutions are stored as separate images.\n levels = omexml.length;\n pyramidIndexer = getOmeLegacyIndexer(tiff, omexml);\n }\n\n // TODO: The OmeTIFF loader only works for the _first_ image in the metadata.\n const imgMeta = omexml[0];\n const {labels, getShape, physicalSizes, dtype} = getOmePixelSourceMeta(imgMeta);\n const tileSize = firstImage.getTileWidth();\n const meta = {photometricInterpretation, physicalSizes};\n\n const data = Array.from({length: levels}).map((_, resolution) => {\n const shape = getShape(resolution);\n const indexer = (sel: OmeTiffSelection) => pyramidIndexer(sel, resolution);\n const source = new TiffPixelSource(indexer, dtype, tileSize, shape, labels, meta);\n return source;\n });\n\n return {data, metadata: imgMeta};\n}\n"],"mappings":"AAEA,OAAOA,eAAe,MAAM,sBAAsB;AAClD,SAAQC,mBAAmB,EAAEC,mBAAmB,QAAuB,gBAAgB;AACvF,SAAQC,qBAAqB,QAAO,aAAa;AACjD,SAAQC,UAAU,QAAO,UAAU;AAGnC,OAAO,MAAMC,SAAS,GAAIC,GAAiB,IAAKA,GAAG,CAACC,aAAa,CAACC,gBAAgB,CAACC,QAAQ,CAAC,MAAM,CAAC;AAEnG,OAAO,eAAeC,WAAWA,CAACC,IAAa,EAAEC,UAAwB,EAAE;EAEzE,MAAM;IACJJ,gBAAgB;IAChBK,OAAO;IACPC,yBAAyB,EAAEC;EAC7B,CAAC,GAAGH,UAAU,CAACL,aAAa;EAC5B,MAAMS,MAAM,GAAGZ,UAAU,CAACI,gBAAgB,CAAC;EAM3C,IAAIS,MAAc;EAClB,IAAIC,cAA8B;EAElC,IAAIL,OAAO,EAAE;IAEXI,MAAM,GAAGJ,OAAO,CAACM,MAAM,GAAG,CAAC;IAC3BD,cAAc,GAAGhB,mBAAmB,CAACS,IAAI,EAAEK,MAAM,CAAC;EACpD,CAAC,MAAM;IAELC,MAAM,GAAGD,MAAM,CAACG,MAAM;IACtBD,cAAc,GAAGjB,mBAAmB,CAACU,IAAI,EAAEK,MAAM,CAAC;EACpD;EAGA,MAAMI,OAAO,GAAGJ,MAAM,CAAC,CAAC,CAAC;EACzB,MAAM;IAACK,MAAM;IAAEC,QAAQ;IAAEC,aAAa;IAAEC;EAAK,CAAC,GAAGrB,qBAAqB,CAACiB,OAAO,CAAC;EAC/E,MAAMK,QAAQ,GAAGb,UAAU,CAACc,YAAY,EAAE;EAC1C,MAAMC,IAAI,GAAG;IAACZ,yBAAyB;IAAEQ;EAAa,CAAC;EAEvD,MAAMK,IAAI,GAAGC,KAAK,CAACC,IAAI,CAAC;IAACX,MAAM,EAAEF;EAAM,CAAC,CAAC,CAACc,GAAG,CAAC,CAACC,CAAC,EAAEC,UAAU,KAAK;IAC/D,MAAMC,KAAK,GAAGZ,QAAQ,CAACW,UAAU,CAAC;IAClC,MAAME,OAAO,GAAIC,GAAqB,IAAKlB,cAAc,CAACkB,GAAG,EAAEH,UAAU,CAAC;IAC1E,MAAMI,MAAM,GAAG,IAAIrC,eAAe,CAACmC,OAAO,EAAEX,KAAK,EAAEC,QAAQ,EAAES,KAAK,EAAEb,MAAM,EAAEM,IAAI,CAAC;IACjF,OAAOU,MAAM;EACf,CAAC,CAAC;EAEF,OAAO;IAACT,IAAI;IAAEU,QAAQ,EAAElB;EAAO,CAAC;AAClC"}
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