@fideus-labs/ngff-zarr 0.9.0 → 0.11.0

package/esm/browser-mod.d.ts

@@ -1,26 +1,27 @@
-export * from "./types/units.js";
-export * from "./types/methods.js";
-export * from "./types/array_interface.js";
-export * from "./types/zarr_metadata.js";
-export * from "./types/ngff_image.js";
-export * from "./types/multiscales.js";
-export * from "./schemas/units.js";
+export { type ChunkCache, fromNgffZarr, type FromNgffZarrOptions, type MemoryStore, } from "./io/from_ngff_zarr-browser.js";
+export { itkImageToNgffImage, type ItkImageToNgffImageOptions, } from "./io/itk_image_to_ngff_image.js";
+export { dataTypeToComponentType, ngffImageToItkImage, type NgffImageToItkImageOptions, } from "./io/ngff_image_to_itk_image.js";
+export type { MemoryStoreToZipOptions } from "./io/rfc9_zip.js";
+export { getZipFileCompressionMethod, getZipFileList, memoryStoreToZip, orderFilesForRfc9, readOzxVersion, } from "./io/rfc9_zip.js";
+export { isOzxPath, toNgffZarr, type ToNgffZarrOptions, toNgffZarrOzx, type ToNgffZarrOzxOptions, } from "./io/to_ngff_zarr-browser.js";
+export * from "./process/to_multiscales-browser.js";
 export * from "./schemas/methods.js";
-export * from "./schemas/zarr_metadata.js";
-export * from "./schemas/ngff_image.js";
 export * from "./schemas/multiscales.js";
-export { isValidDimension, isValidUnit, validateMetadata, } from "./utils/validation.js";
-export { createAxis, createDataset, createMetadata, createMultiscales, createNgffImage, } from "./utils/factory.js";
-export { getMethodMetadata } from "./utils/method_metadata.js";
-export { computeOmeroFromMultiscales, computeOmeroFromNgffImage, getDefaultColors, GLASBEY_COLORS, terminateOmeroWorkerPool, } from "./utils/compute_omero.js";
+export * from "./schemas/ngff_image.js";
+export * from "./schemas/units.js";
+export * from "./schemas/zarr_metadata.js";
+export * from "./types/array_interface.js";
+export * from "./types/methods.js";
+export * from "./types/multiscales.js";
+export * from "./types/ngff_image.js";
+export * from "./types/units.js";
+export * from "./types/zarr_metadata.js";
 export type { ComputeOmeroFromMultiscalesOptions, ComputeOmeroOptions, } from "./utils/compute_omero.js";
-export { buildOmeroFromAccumulators, computeChannelStatistics, createAccumulator, extractChannel, finalizeStatistics, QUANTILE_SAMPLE_SIZE, updateAccumulator, validateQuantiles, } from "./utils/compute_omero-shared.js";
+export { computeOmeroFromMultiscales, computeOmeroFromNgffImage, getDefaultColors, GLASBEY_COLORS, terminateOmeroWorkerPool, } from "./utils/compute_omero.js";
 export type { ChannelStatisticsAccumulator } from "./utils/compute_omero-shared.js";
+export { buildOmeroFromAccumulators, computeChannelStatistics, createAccumulator, extractChannel, finalizeStatistics, QUANTILE_SAMPLE_SIZE, updateAccumulator, validateQuantiles, } from "./utils/compute_omero-shared.js";
+export { createAxis, createDataset, createMetadata, createMultiscales, createNgffImage, } from "./utils/factory.js";
+export { getMethodMetadata } from "./utils/method_metadata.js";
+export { isValidDimension, isValidUnit, validateMetadata, } from "./utils/validation.js";
 export { terminateWorkerPool, zarrGet, zarrSet } from "./utils/worker_pool.js";
-export { type ChunkCache, fromNgffZarr, type FromNgffZarrOptions, type MemoryStore, } from "./io/from_ngff_zarr-browser.js";
-export { isOzxPath, toNgffZarr, type ToNgffZarrOptions, toNgffZarrOzx, type ToNgffZarrOzxOptions, } from "./io/to_ngff_zarr-browser.js";
-export { getZipFileCompressionMethod, getZipFileList, memoryStoreToZip, orderFilesForRfc9, readOzxVersion, } from "./io/rfc9_zip.js";
-export type { MemoryStoreToZipOptions } from "./io/rfc9_zip.js";
-export * from "./process/to_multiscales-browser.js";
-export { itkImageToNgffImage, type ItkImageToNgffImageOptions, } from "./io/itk_image_to_ngff_image.js";
 //# sourceMappingURL=browser-mod.d.ts.map

package/esm/browser-mod.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"browser-mod.d.ts","sourceRoot":"","sources":["../src/browser-mod.ts"],"names":[],"mappings":"AAWA,OAAO,EACL,KAAK,UAAU,EACf,YAAY,EACZ,KAAK,mBAAmB,EACxB,KAAK,WAAW,GACjB,MAAM,gCAAgC,CAAC;AAExC,OAAO,EACL,mBAAmB,EACnB,KAAK,0BAA0B,GAChC,MAAM,iCAAiC,CAAC;AACzC,OAAO,EACL,uBAAuB,EACvB,mBAAmB,EACnB,KAAK,0BAA0B,GAChC,MAAM,iCAAiC,CAAC;AACzC,YAAY,EAAE,uBAAuB,EAAE,MAAM,kBAAkB,CAAC;AAEhE,OAAO,EACL,2BAA2B,EAC3B,cAAc,EACd,gBAAgB,EAChB,iBAAiB,EACjB,cAAc,GACf,MAAM,kBAAkB,CAAC;AAC1B,OAAO,EACL,SAAS,EACT,UAAU,EACV,KAAK,iBAAiB,EACtB,aAAa,EACb,KAAK,oBAAoB,GAC1B,MAAM,8BAA8B,CAAC;AAEtC,cAAc,qCAAqC,CAAC;AACpD,cAAc,sBAAsB,CAAC;AACrC,cAAc,0BAA0B,CAAC;AACzC,cAAc,yBAAyB,CAAC;AACxC,cAAc,oBAAoB,CAAC;AACnC,cAAc,4BAA4B,CAAC;AAC3C,cAAc,4BAA4B,CAAC;AAC3C,cAAc,oBAAoB,CAAC;AACnC,cAAc,wBAAwB,CAAC;AACvC,cAAc,uBAAuB,CAAC;AACtC,cAAc,kBAAkB,CAAC;AACjC,cAAc,0BAA0B,CAAC;AACzC,YAAY,EACV,kCAAkC,EAClC,mBAAmB,GACpB,MAAM,0BAA0B,CAAC;AAElC,OAAO,EACL,2BAA2B,EAC3B,yBAAyB,EACzB,gBAAgB,EAChB,cAAc,EACd,wBAAwB,GACzB,MAAM,0BAA0B,CAAC;AAClC,YAAY,EAAE,4BAA4B,EAAE,MAAM,iCAAiC,CAAC;AAEpF,OAAO,EACL,0BAA0B,EAC1B,wBAAwB,EACxB,iBAAiB,EACjB,cAAc,EACd,kBAAkB,EAClB,oBAAoB,EACpB,iBAAiB,EACjB,iBAAiB,GAClB,MAAM,iCAAiC,CAAC;AACzC,OAAO,EACL,UAAU,EACV,aAAa,EACb,cAAc,EACd,iBAAiB,EACjB,eAAe,GAChB,MAAM,oBAAoB,CAAC;AAC5B,OAAO,EAAE,iBAAiB,EAAE,MAAM,4BAA4B,CAAC;AAC/D,OAAO,EACL,gBAAgB,EAChB,WAAW,EACX,gBAAgB,GACjB,MAAM,uBAAuB,CAAC;AAC/B,OAAO,EAAE,mBAAmB,EAAE,OAAO,EAAE,OAAO,EAAE,MAAM,wBAAwB,CAAC"}

package/esm/browser-mod.js

@@ -5,34 +5,35 @@
 //
 // The browser versions support MemoryStore (Map) and HTTP/HTTPS URLs (read-only),
 // but not local file paths (which require Node.js/Deno filesystem APIs).
-export * from "./types/units.js";
-export * from "./types/methods.js";
-export * from "./types/array_interface.js";
-export * from "./types/zarr_metadata.js";
-export * from "./types/ngff_image.js";
-export * from "./types/multiscales.js";
-export * from "./schemas/units.js";
-export * from "./schemas/methods.js";
-export * from "./schemas/zarr_metadata.js";
-export * from "./schemas/ngff_image.js";
-export * from "./schemas/multiscales.js";
-export { isValidDimension, isValidUnit, validateMetadata, } from "./utils/validation.js";
-export { createAxis, createDataset, createMetadata, createMultiscales, createNgffImage, } from "./utils/factory.js";
-export { getMethodMetadata } from "./utils/method_metadata.js";
-// OMERO computation with WorkerPool
-export { computeOmeroFromMultiscales, computeOmeroFromNgffImage, getDefaultColors, GLASBEY_COLORS, terminateOmeroWorkerPool, } from "./utils/compute_omero.js";
-// Shared OMERO computation functions for benchmarking and direct use
-export { buildOmeroFromAccumulators, computeChannelStatistics, createAccumulator, extractChannel, finalizeStatistics, QUANTILE_SAMPLE_SIZE, updateAccumulator, validateQuantiles, } from "./utils/compute_omero-shared.js";
-export { terminateWorkerPool, zarrGet, zarrSet } from "./utils/worker_pool.js";
 // Browser-compatible I/O modules
 // Note: Uses browser-specific versions that don't import @zarrita/storage
 // (which contains Node.js-specific modules like node:fs, node:buffer, node:path)
 export { fromNgffZarr, } from "./io/from_ngff_zarr-browser.js";
-export { isOzxPath, toNgffZarr, toNgffZarrOzx, } from "./io/to_ngff_zarr-browser.js";
+// ITK-Wasm conversion utilities
+export { itkImageToNgffImage, } from "./io/itk_image_to_ngff_image.js";
+export { dataTypeToComponentType, ngffImageToItkImage, } from "./io/ngff_image_to_itk_image.js";
 // RFC-9 exports
 export { getZipFileCompressionMethod, getZipFileList, memoryStoreToZip, orderFilesForRfc9, readOzxVersion, } from "./io/rfc9_zip.js";
+export { isOzxPath, toNgffZarr, toNgffZarrOzx, } from "./io/to_ngff_zarr-browser.js";
 // Browser-compatible processing modules
 export * from "./process/to_multiscales-browser.js";
-// ITK-Wasm conversion utilities
-export { itkImageToNgffImage, } from "./io/itk_image_to_ngff_image.js";
+export * from "./schemas/methods.js";
+export * from "./schemas/multiscales.js";
+export * from "./schemas/ngff_image.js";
+export * from "./schemas/units.js";
+export * from "./schemas/zarr_metadata.js";
+export * from "./types/array_interface.js";
+export * from "./types/methods.js";
+export * from "./types/multiscales.js";
+export * from "./types/ngff_image.js";
+export * from "./types/units.js";
+export * from "./types/zarr_metadata.js";
+// OMERO computation with WorkerPool
+export { computeOmeroFromMultiscales, computeOmeroFromNgffImage, getDefaultColors, GLASBEY_COLORS, terminateOmeroWorkerPool, } from "./utils/compute_omero.js";
+// Shared OMERO computation functions for benchmarking and direct use
+export { buildOmeroFromAccumulators, computeChannelStatistics, createAccumulator, extractChannel, finalizeStatistics, QUANTILE_SAMPLE_SIZE, updateAccumulator, validateQuantiles, } from "./utils/compute_omero-shared.js";
+export { createAxis, createDataset, createMetadata, createMultiscales, createNgffImage, } from "./utils/factory.js";
+export { getMethodMetadata } from "./utils/method_metadata.js";
+export { isValidDimension, isValidUnit, validateMetadata, } from "./utils/validation.js";
+export { terminateWorkerPool, zarrGet, zarrSet } from "./utils/worker_pool.js";
 //# sourceMappingURL=browser-mod.js.map

package/esm/browser-mod.js.map

@@ -1 +1 @@
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package/esm/io/from_ngff_zarr-browser.d.ts

@@ -19,8 +19,9 @@ export interface FromNgffZarrOptions {
 export type MemoryStore = Map<string, Uint8Array>;
 /**
  * Browser-compatible version of fromNgffZarr.
- * Supports HTTP/HTTPS URLs, MemoryStore (Map), and FetchStore.
+ * Supports HTTP/HTTPS URLs, MemoryStore (Map), FetchStore, and any
+ * zarrita-compatible Readable store (e.g. TiffStore from @fideus-labs/fiff).
  * Does NOT support local file paths (use the full version in Node.js/Deno).
  */
-export declare function fromNgffZarr(store: string | MemoryStore | zarr.FetchStore, options?: FromNgffZarrOptions): Promise<Multiscales>;
+export declare function fromNgffZarr(store: string | MemoryStore | zarr.FetchStore | zarr.Readable, options?: FromNgffZarrOptions): Promise<Multiscales>;
 //# sourceMappingURL=from_ngff_zarr-browser.d.ts.map

package/esm/io/from_ngff_zarr-browser.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"from_ngff_zarr-browser.d.ts","sourceRoot":"","sources":["../../src/io/from_ngff_zarr-browser.ts"],"names":[],"mappings":"AAIA,OAAO,KAAK,IAAI,MAAM,SAAS,CAAC;AAGhC,OAAO,EAAE,WAAW,EAAE,MAAM,yBAAyB,CAAC;AAMtD,YAAY,EAAE,UAAU,EAAE,MAAM,yBAAyB,CAAC;AAE1D,MAAM,WAAW,mBAAmB;IAClC,qDAAqD;IACrD,QAAQ,CAAC,EAAE,OAAO,CAAC;IACnB,iCAAiC;IACjC,OAAO,CAAC,EAAE,KAAK,GAAG,KAAK,CAAC;IACxB;;;;;;;OAOG;IACH,KAAK,CAAC,EAAE,OAAO,yBAAyB,EAAE,UAAU,CAAC;CACtD;AAED,MAAM,MAAM,WAAW,GAAG,GAAG,CAAC,MAAM,EAAE,UAAU,CAAC,CAAC;AAElD;;;;;GAKG;AACH,wBAAsB,YAAY,CAChC,KAAK,EAAE,MAAM,GAAG,WAAW,GAAG,IAAI,CAAC,UAAU,GAAG,IAAI,CAAC,QAAQ,EAC7D,OAAO,GAAE,mBAAwB,GAChC,OAAO,CAAC,WAAW,CAAC,CAmOtB"}

package/esm/io/from_ngff_zarr-browser.js

@@ -9,7 +9,8 @@ import { NgffImage } from "../types/ngff_image.js";
 import { extractMethodMetadata } from "../utils/parse_metadata.js";
 /**
  * Browser-compatible version of fromNgffZarr.
- * Supports HTTP/HTTPS URLs, MemoryStore (Map), and FetchStore.
+ * Supports HTTP/HTTPS URLs, MemoryStore (Map), FetchStore, and any
+ * zarrita-compatible Readable store (e.g. TiffStore from @fideus-labs/fiff).
  * Does NOT support local file paths (use the full version in Node.js/Deno).
  */
 export async function fromNgffZarr(store, options = {}) {
@@ -18,16 +19,25 @@ export async function fromNgffZarr(store, options = {}) {
     try {
         // Determine the appropriate store type based on the path
         let resolvedStore;
-        if (store instanceof Map || store instanceof zarr.FetchStore) {
+        if (typeof store === "object" &&
+            store !== null &&
+            "get" in store &&
+            typeof store.get === "function") {
+            // Duck-type check for zarrita Readable stores (e.g. TiffStore, FetchStore, MemoryStore)
             resolvedStore = store;
         }
-        else if (store.startsWith("http://") || store.startsWith("https://")) {
+        else if (store instanceof Map || store instanceof zarr.FetchStore) {
+            // Defensive fallback for Map/FetchStore (normally caught by duck-type check above)
+            resolvedStore = store;
+        }
+        else if (typeof store === "string" &&
+            (store.startsWith("http://") || store.startsWith("https://"))) {
             // Use FetchStore for HTTP/HTTPS URLs
             resolvedStore = new zarr.FetchStore(store);
         }
         else {
             // Local file paths are not supported in browser environments
-            throw new Error("Local file paths are not supported in browser environments. Use HTTP/HTTPS URLs or MemoryStore instead.");
+            throw new Error("Local file paths are not supported in browser environments. Use HTTP/HTTPS URLs, MemoryStore, or a Readable store instead.");
         }
         // Try to use consolidated metadata for better performance
         let optimizedStore;

package/esm/io/from_ngff_zarr-browser.js.map

@@ -1 +1 @@
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package/esm/io/from_ngff_zarr.d.ts

@@ -17,6 +17,6 @@ export interface FromNgffZarrOptions {
     cache?: import("../utils/worker_pool.js").ChunkCache;
 }
 export type MemoryStore = Map<string, Uint8Array>;
-export declare function fromNgffZarr(store: string | MemoryStore | zarr.FetchStore, options?: FromNgffZarrOptions): Promise<Multiscales>;
+export declare function fromNgffZarr(store: string | MemoryStore | zarr.FetchStore | zarr.Readable, options?: FromNgffZarrOptions): Promise<Multiscales>;
 export declare function readArrayData(storePath: string, arrayPath: string, selection?: (number | null)[]): Promise<unknown>;
 //# sourceMappingURL=from_ngff_zarr.d.ts.map

package/esm/io/from_ngff_zarr.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"from_ngff_zarr.d.ts","sourceRoot":"","sources":["../../src/io/from_ngff_zarr.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,IAAI,MAAM,SAAS,CAAC;AAChC,OAAO,EAAE,WAAW,EAAE,MAAM,yBAAyB,CAAC;AAWtD,YAAY,EAAE,UAAU,EAAE,MAAM,yBAAyB,CAAC;AAE1D,MAAM,WAAW,mBAAmB;IAClC,qDAAqD;IACrD,QAAQ,CAAC,EAAE,OAAO,CAAC;IACnB,iCAAiC;IACjC,OAAO,CAAC,EAAE,KAAK,GAAG,KAAK,CAAC;IACxB;;;;;;;OAOG;IACH,KAAK,CAAC,EAAE,OAAO,yBAAyB,EAAE,UAAU,CAAC;CACtD;AAED,MAAM,MAAM,WAAW,GAAG,GAAG,CAAC,MAAM,EAAE,UAAU,CAAC,CAAC;AAElD,wBAAsB,YAAY,CAEhC,KAAK,EAAE,MAAM,GAAG,WAAW,GAAG,IAAI,CAAC,UAAU,EAC7C,OAAO,GAAE,mBAAwB,GAChC,OAAO,CAAC,WAAW,CAAC,CAsHtB;AAED,wBAAsB,aAAa,CACjC,SAAS,EAAE,MAAM,EACjB,SAAS,EAAE,MAAM,EACjB,SAAS,CAAC,EAAE,CAAC,MAAM,GAAG,IAAI,CAAC,EAAE,GAC5B,OAAO,CAAC,OAAO,CAAC,CAmClB"}
+{"version":3,"file":"from_ngff_zarr.d.ts","sourceRoot":"","sources":["../../src/io/from_ngff_zarr.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,IAAI,MAAM,SAAS,CAAC;AAEhC,OAAO,EAAE,WAAW,EAAE,MAAM,yBAAyB,CAAC;AAYtD,YAAY,EAAE,UAAU,EAAE,MAAM,yBAAyB,CAAC;AAE1D,MAAM,WAAW,mBAAmB;IAClC,qDAAqD;IACrD,QAAQ,CAAC,EAAE,OAAO,CAAC;IACnB,iCAAiC;IACjC,OAAO,CAAC,EAAE,KAAK,GAAG,KAAK,CAAC;IACxB;;;;;;;OAOG;IACH,KAAK,CAAC,EAAE,OAAO,yBAAyB,EAAE,UAAU,CAAC;CACtD;AAED,MAAM,MAAM,WAAW,GAAG,GAAG,CAAC,MAAM,EAAE,UAAU,CAAC,CAAC;AAElD,wBAAsB,YAAY,CAEhC,KAAK,EAAE,MAAM,GAAG,WAAW,GAAG,IAAI,CAAC,UAAU,GAAG,IAAI,CAAC,QAAQ,EAC7D,OAAO,GAAE,mBAAwB,GAChC,OAAO,CAAC,WAAW,CAAC,CAqItB;AAED,wBAAsB,aAAa,CACjC,SAAS,EAAE,MAAM,EACjB,SAAS,EAAE,MAAM,EACjB,SAAS,CAAC,EAAE,CAAC,MAAM,GAAG,IAAI,CAAC,EAAE,GAC5B,OAAO,CAAC,OAAO,CAAC,CAmClB"}

package/esm/io/from_ngff_zarr.js

@@ -3,25 +3,36 @@
 import * as zarr from "zarrita";
 import { Multiscales } from "../types/multiscales.js";
 import { NgffVersion } from "../types/supported_versions.js";
-import { detectVersion, extractMethodMetadata, } from "../utils/parse_metadata.js";
 import { fromZarrAttrsV04, fromZarrAttrsV05, } from "../utils/from_zarr_attrs.js";
+import { detectVersion, extractMethodMetadata, } from "../utils/parse_metadata.js";
 import { zarrGet } from "../utils/worker_pool.js";
 export async function fromNgffZarr(
-// Also accepts FileSystemStore, ZipFileStore objects in Node.js/Deno
+// Also accepts FileSystemStore, ZipFileStore, or any zarrita Readable store
 store, options = {}) {
     const validate = options.validate ?? false;
     const requestedVersion = options.version;
     try {
         // Determine the appropriate store type based on the path
         let resolvedStore;
-        if (store instanceof Map || store instanceof zarr.FetchStore) {
+        if (typeof store === "object" &&
+            store !== null &&
+            "get" in store &&
+            typeof store.get === "function") {
+            // Duck-type check for zarrita Readable stores (e.g. TiffStore, FetchStore, MemoryStore)
+            resolvedStore = store;
+        }
+        else if (store instanceof Map || store instanceof zarr.FetchStore) {
+            // Defensive fallback for Map/FetchStore (normally caught by duck-type check above)
             resolvedStore = store;
         }
-        else if (store.startsWith("http://") || store.startsWith("https://")) {
+        else if (typeof store === "string" &&
+            (store.startsWith("http://") || store.startsWith("https://"))) {
             // Use FetchStore for HTTP/HTTPS URLs
             resolvedStore = new zarr.FetchStore(store);
         }
         else {
+            // Only strings (local paths) reach this branch
+            const storePath = store;
             // For local paths, check if we're in a browser environment
             if (typeof window !== "undefined") {
                 throw new Error("Local file paths are not supported in browser environments. Use HTTP/HTTPS URLs instead.");
@@ -29,15 +40,12 @@ store, options = {}) {
             // Use dynamic import for FileSystemStore, ZipFileStore in Node.js/Deno environments
             try {
                 const { FileSystemStore, ZipFileStore } = await import("@zarrita/storage");
-                // @ts-ignore: Node/Deno workaround
                 if (store instanceof FileSystemStore || store instanceof ZipFileStore) {
-                    // @ts-ignore: Node/Deno workaround
                     resolvedStore = store;
                 }
                 else {
                     // Normalize the path for cross-platform compatibility
-                    const normalizedPath = store.replace(/^\/([A-Za-z]:)/, "$1");
-                    // @ts-ignore: Node/Deno workaround
+                    const normalizedPath = storePath.replace(/^\/([A-Za-z]:)/, "$1");
                     resolvedStore = new FileSystemStore(normalizedPath);
                 }
             }
@@ -48,7 +56,6 @@ store, options = {}) {
         // Try to use consolidated metadata for better performance
         let optimizedStore;
         try {
-            // @ts-ignore: tryWithConsolidated typing
             optimizedStore = await zarr.tryWithConsolidated(resolvedStore);
         }
         catch {

package/esm/io/from_ngff_zarr.js.map

@@ -1 +1 @@
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package/esm/io/to_ngff_zarr-browser.d.ts

@@ -14,6 +14,14 @@ export interface ToNgffZarrOptions {
 export interface ToNgffZarrOzxOptions {
     /** List of RFC numbers to enable (e.g., [4] for RFC 4 anatomical orientation) */
     enabledRfcs?: number[] | undefined;
+    /**
+     * Optional progress callback invoked after each chunk is written.
+     * Reports cumulative progress across all scale levels.
+     *
+     * @param completedChunks - Number of chunks written so far
+     * @param totalChunks - Total number of chunks to write across all levels
+     */
+    onProgress?: ((completedChunks: number, totalChunks: number) => void) | undefined;
 }
 /**
  * Browser-compatible version of toNgffZarr.

package/esm/io/to_ngff_zarr-browser.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"to_ngff_zarr-browser.d.ts","sourceRoot":"","sources":["../../src/io/to_ngff_zarr-browser.ts"],"names":[],"mappings":"AAIA,OAAO,KAAK,IAAI,MAAM,SAAS,CAAC;AAChC,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,yBAAyB,CAAC;AAE3D,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,6BAA6B,CAAC;AAK/D,OAAO,EAAE,SAAS,EAAE,MAAM,eAAe,CAAC;AAE1C,MAAM,WAAW,iBAAiB;IAChC,SAAS,CAAC,EAAE,OAAO,CAAC;IACpB,OAAO,CAAC,EAAE,KAAK,GAAG,KAAK,CAAC;IACxB,cAAc,CAAC,EAAE,MAAM,GAAG,MAAM,EAAE,GAAG,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;CAC7D;AAED;;;GAGG;AACH,MAAM,WAAW,oBAAoB;IACnC,iFAAiF;IACjF,WAAW,CAAC,EAAE,MAAM,EAAE,GAAG,SAAS,CAAC;CACpC;AAED;;;;GAIG;AACH,wBAAsB,UAAU,CAC9B,KAAK,EAAE,MAAM,GAAG,WAAW,GAAG,IAAI,CAAC,UAAU,EAC7C,WAAW,EAAE,WAAW,EACxB,OAAO,GAAE,iBAAsB,GAC9B,OAAO,CAAC,IAAI,CAAC,CAyFf;AAuVD;;;;;;;;;;;;;;;GAeG;AACH,wBAAsB,aAAa,CACjC,WAAW,EAAE,WAAW,EACxB,QAAQ,GAAE,oBAAyB,GAClC,OAAO,CAAC,UAAU,CAAC,CAkBrB"}
+{"version":3,"file":"to_ngff_zarr-browser.d.ts","sourceRoot":"","sources":["../../src/io/to_ngff_zarr-browser.ts"],"names":[],"mappings":"AAIA,OAAO,KAAK,IAAI,MAAM,SAAS,CAAC;AAEhC,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,yBAAyB,CAAC;AAI3D,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,6BAA6B,CAAC;AAI/D,OAAO,EAAE,SAAS,EAAE,MAAM,eAAe,CAAC;AAE1C,MAAM,WAAW,iBAAiB;IAChC,SAAS,CAAC,EAAE,OAAO,CAAC;IACpB,OAAO,CAAC,EAAE,KAAK,GAAG,KAAK,CAAC;IACxB,cAAc,CAAC,EAAE,MAAM,GAAG,MAAM,EAAE,GAAG,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;CAC7D;AAED;;;GAGG;AACH,MAAM,WAAW,oBAAoB;IACnC,iFAAiF;IACjF,WAAW,CAAC,EAAE,MAAM,EAAE,GAAG,SAAS,CAAC;IACnC;;;;;;OAMG;IACH,UAAU,CAAC,EACP,CAAC,CAAC,eAAe,EAAE,MAAM,EAAE,WAAW,EAAE,MAAM,KAAK,IAAI,CAAC,GACxD,SAAS,CAAC;CACf;AAED;;;;GAIG;AACH,wBAAsB,UAAU,CAC9B,KAAK,EAAE,MAAM,GAAG,WAAW,GAAG,IAAI,CAAC,UAAU,EAC7C,WAAW,EAAE,WAAW,EACxB,OAAO,GAAE,iBAAsB,GAC9B,OAAO,CAAC,IAAI,CAAC,CAyFf;AA0VD;;;;;;;;;;;;;;;GAeG;AACH,wBAAsB,aAAa,CACjC,WAAW,EAAE,WAAW,EACxB,QAAQ,GAAE,oBAAyB,GAClC,OAAO,CAAC,UAAU,CAAC,CAmBrB"}

package/esm/io/to_ngff_zarr-browser.js

@@ -3,8 +3,8 @@
 // Browser-compatible version of to_ngff_zarr that doesn't import @zarrita/storage
 // (which contains Node.js-specific modules like node:fs, node:buffer, node:path)
 import * as zarr from "zarrita";
-import { createWriteQueue, zarrGet, zarrSet } from "../utils/worker_pool.js";
 import { defaultCodecs } from "../utils/codecs.js";
+import { createWriteQueue, zarrGet, zarrSet } from "../utils/worker_pool.js";
 import { memoryStoreToZip } from "./rfc9_zip.js";
 import { writeMultiscalesToMemoryStore } from "./to_ngff_zarr_ozx_common.js";
 export { isOzxPath } from "./rfc9_zip.js";
@@ -141,7 +141,7 @@ function getTypedArrayConstructor(dtype) {
         throw new Error(`Unsupported data type for typed array: ${dtype}`);
     }
 }
-async function _writeImage(group, image, arrayPath) {
+async function _writeImage(group, image, arrayPath, onProgress) {
     try {
         const chunks = getChunksFromImage(image);
         // Convert LazyArray dtype to zarrita DataType
@@ -156,7 +156,7 @@ async function _writeImage(group, image, arrayPath) {
             fill_value: 0,
             codecs: defaultCodecs(zarrDataType),
         });
-        await _writeArrayData(zarrArray, image);
+        await _writeArrayData(zarrArray, image, onProgress);
     }
     catch (error) {
         throw new Error(`Failed to write image array: ${error instanceof Error ? error.message : String(error)}`);
@@ -169,7 +169,7 @@ function getChunksFromImage(image) {
     }
     return image.data.shape.map((dim) => Math.min(dim, 1024));
 }
-async function _writeArrayData(zarrArray, image) {
+async function _writeArrayData(zarrArray, image, onProgress) {
     try {
         // Get array shape for chunk calculation - we don't need the full data here
         const shape = image.data.shape;
@@ -184,7 +184,7 @@ async function _writeArrayData(zarrArray, image) {
             });
         }
         // Wait for all chunks to be written
-        await writeQueue.onIdle();
+        await writeQueue.onIdle(onProgress);
     }
     catch (error) {
         throw new Error(`Failed to write array data: ${error instanceof Error ? error.message : String(error)}`);
@@ -349,7 +349,7 @@ export async function toNgffZarrOzx(multiscales, _options = {}) {
     // Create a memory store to hold the zarr data
     const memoryStore = new Map();
     // Use the shared write function
-    await writeMultiscalesToMemoryStore(memoryStore, multiscales, enabledRfcs, _writeImage);
+    await writeMultiscalesToMemoryStore(memoryStore, multiscales, enabledRfcs, _writeImage, _options.onProgress ?? null);
     // Convert the memory store to ZIP data
     const zipData = memoryStoreToZip(memoryStore, { version: "0.5" });
     return zipData;

package/esm/io/to_ngff_zarr-browser.js.map

@@ -1 +1 @@
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package/esm/io/to_ngff_zarr.d.ts

@@ -21,6 +21,14 @@ export interface ToNgffZarrOptions {
 export interface ToNgffZarrOzxOptions {
     /** List of RFC numbers to enable (e.g., [4] for RFC 4 anatomical orientation) */
     enabledRfcs?: number[] | undefined;
+    /**
+     * Optional progress callback invoked after each chunk is written.
+     * Reports cumulative progress across all scale levels.
+     *
+     * @param completedChunks - Number of chunks written so far
+     * @param totalChunks - Total number of chunks to write across all levels
+     */
+    onProgress?: ((completedChunks: number, totalChunks: number) => void) | undefined;
 }
 /**
  * Write multiscales data to an OME-Zarr store.

package/esm/io/to_ngff_zarr.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"to_ngff_zarr.d.ts","sourceRoot":"","sources":["../../src/io/to_ngff_zarr.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,IAAI,MAAM,SAAS,CAAC;AAChC,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,yBAAyB,CAAC;AAE3D,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,qBAAqB,CAAC;AASvD,MAAM,WAAW,iBAAiB;IAChC,SAAS,CAAC,EAAE,OAAO,CAAC;IACpB;;;;;OAKG;IACH,OAAO,CAAC,EAAE,KAAK,GAAG,KAAK,CAAC;IACxB,cAAc,CAAC,EAAE,MAAM,GAAG,MAAM,EAAE,GAAG,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IAC5D,iFAAiF;IACjF,WAAW,CAAC,EAAE,MAAM,EAAE,CAAC;CACxB;AAED;;;GAGG;AACH,MAAM,WAAW,oBAAoB;IACnC,iFAAiF;IACjF,WAAW,CAAC,EAAE,MAAM,EAAE,GAAG,SAAS,CAAC;CACpC;AAED;;;;;;;;;;;;;;;;;;;;;;;;GAwBG;AACH,wBAAsB,UAAU,CAC9B,KAAK,EAAE,MAAM,GAAG,WAAW,GAAG,IAAI,CAAC,UAAU,EAC7C,WAAW,EAAE,WAAW,EACxB,OAAO,GAAE,iBAAsB,GAC9B,OAAO,CAAC,IAAI,CAAC,CAwIf;AAuVD;;;;;;;;;;;;;;;;;;;GAmBG;AACH,wBAAsB,aAAa,CACjC,IAAI,EAAE,MAAM,EACZ,WAAW,EAAE,WAAW,EACxB,OAAO,GAAE,oBAAyB,GACjC,OAAO,CAAC,IAAI,CAAC,CAyBf;AAED;;;;;;;;;;;;GAYG;AACH,wBAAsB,iBAAiB,CACrC,WAAW,EAAE,WAAW,EACxB,OAAO,GAAE,oBAAyB,GACjC,OAAO,CAAC,UAAU,CAAC,CAerB"}
+{"version":3,"file":"to_ngff_zarr.d.ts","sourceRoot":"","sources":["../../src/io/to_ngff_zarr.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,IAAI,MAAM,SAAS,CAAC;AAEhC,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,yBAAyB,CAAC;AAI3D,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,qBAAqB,CAAC;AAOvD,MAAM,WAAW,iBAAiB;IAChC,SAAS,CAAC,EAAE,OAAO,CAAC;IACpB;;;;;OAKG;IACH,OAAO,CAAC,EAAE,KAAK,GAAG,KAAK,CAAC;IACxB,cAAc,CAAC,EAAE,MAAM,GAAG,MAAM,EAAE,GAAG,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IAC5D,iFAAiF;IACjF,WAAW,CAAC,EAAE,MAAM,EAAE,CAAC;CACxB;AAED;;;GAGG;AACH,MAAM,WAAW,oBAAoB;IACnC,iFAAiF;IACjF,WAAW,CAAC,EAAE,MAAM,EAAE,GAAG,SAAS,CAAC;IACnC;;;;;;OAMG;IACH,UAAU,CAAC,EACP,CAAC,CAAC,eAAe,EAAE,MAAM,EAAE,WAAW,EAAE,MAAM,KAAK,IAAI,CAAC,GACxD,SAAS,CAAC;CACf;AAED;;;;;;;;;;;;;;;;;;;;;;;;GAwBG;AACH,wBAAsB,UAAU,CAC9B,KAAK,EAAE,MAAM,GAAG,WAAW,GAAG,IAAI,CAAC,UAAU,EAC7C,WAAW,EAAE,WAAW,EACxB,OAAO,GAAE,iBAAsB,GAC9B,OAAO,CAAC,IAAI,CAAC,CAwIf;AA0VD;;;;;;;;;;;;;;;;;;;GAmBG;AACH,wBAAsB,aAAa,CACjC,IAAI,EAAE,MAAM,EACZ,WAAW,EAAE,WAAW,EACxB,OAAO,GAAE,oBAAyB,GACjC,OAAO,CAAC,IAAI,CAAC,CAyBf;AAED;;;;;;;;;;;;GAYG;AACH,wBAAsB,iBAAiB,CACrC,WAAW,EAAE,WAAW,EACxB,OAAO,GAAE,oBAAyB,GACjC,OAAO,CAAC,UAAU,CAAC,CAoBrB"}

package/esm/io/to_ngff_zarr.js

@@ -1,8 +1,8 @@
 // SPDX-FileCopyrightText: Copyright (c) Fideus Labs LLC
 // SPDX-License-Identifier: MIT
 import * as zarr from "zarrita";
-import { createWriteQueue, zarrGet, zarrSet } from "../utils/worker_pool.js";
 import { defaultCodecs } from "../utils/codecs.js";
+import { createWriteQueue, zarrGet, zarrSet } from "../utils/worker_pool.js";
 import { isOzxPath, memoryStoreToZip } from "./rfc9_zip.js";
 import { processAxesForRfcs, writeMultiscalesToMemoryStore, } from "./to_ngff_zarr_ozx_common.js";
 /**
@@ -192,7 +192,7 @@ function getTypedArrayConstructor(dtype) {
         throw new Error(`Unsupported data type for typed array: ${dtype}`);
     }
 }
-async function _writeImage(group, image, arrayPath) {
+async function _writeImage(group, image, arrayPath, onProgress) {
     try {
         const chunks = getChunksFromImage(image);
         // Convert LazyArray dtype to zarrita DataType
@@ -207,7 +207,7 @@ async function _writeImage(group, image, arrayPath) {
             fill_value: 0,
             codecs: defaultCodecs(zarrDataType),
         });
-        await _writeArrayData(zarrArray, image);
+        await _writeArrayData(zarrArray, image, onProgress);
     }
     catch (error) {
         throw new Error(`Failed to write image array: ${error instanceof Error ? error.message : String(error)}`);
@@ -220,7 +220,7 @@ function getChunksFromImage(image) {
     }
     return image.data.shape.map((dim) => Math.min(dim, 1024));
 }
-async function _writeArrayData(zarrArray, image) {
+async function _writeArrayData(zarrArray, image, onProgress) {
     try {
         // Get array shape for chunk calculation - we don't need the full data here
         const shape = image.data.shape;
@@ -235,7 +235,7 @@ async function _writeArrayData(zarrArray, image) {
             });
         }
         // Wait for all chunks to be written
-        await writeQueue.onIdle();
+        await writeQueue.onIdle(onProgress);
     }
     catch (error) {
         throw new Error(`Failed to write array data: ${error instanceof Error ? error.message : String(error)}`);
@@ -438,7 +438,7 @@ export async function toNgffZarrOzxData(multiscales, options = {}) {
     // Write to the memory store using existing toNgffZarr logic
     // but we need to inline the core logic since toNgffZarr would
     // try to detect .ozx again
-    await _writeToMemoryStore(memoryStore, multiscales, enabledRfcs);
+    await _writeToMemoryStore(memoryStore, multiscales, enabledRfcs, options.onProgress ?? null);
     // Convert the memory store to ZIP data
     const zipData = memoryStoreToZip(memoryStore, { version: "0.5" });
     return zipData;
@@ -447,7 +447,7 @@ export async function toNgffZarrOzxData(multiscales, options = {}) {
  * Internal function to write multiscales to a memory store.
  * Used by toNgffZarrOzxData to avoid recursion with toNgffZarr.
  */
-async function _writeToMemoryStore(store, multiscales, enabledRfcs) {
-    await writeMultiscalesToMemoryStore(store, multiscales, enabledRfcs, _writeImage);
+async function _writeToMemoryStore(store, multiscales, enabledRfcs, onProgress) {
+    await writeMultiscalesToMemoryStore(store, multiscales, enabledRfcs, _writeImage, onProgress);
 }
 //# sourceMappingURL=to_ngff_zarr.js.map

package/esm/io/to_ngff_zarr.js.map

@@ -1 +1 @@
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package/esm/io/to_ngff_zarr_ozx_common.d.ts

@@ -46,6 +46,8 @@ export declare function createRfc9RootAttributes(multiscalesMetadata: Record<str
  * @param multiscales - Multiscales data to write
  * @param enabledRfcs - Optional list of RFC numbers to enable
  * @param writeImage - Function to write individual images
+ * @param onProgress - Optional progress callback for cumulative chunk
+ *   progress across all scale levels
  */
-export declare function writeMultiscalesToMemoryStore(store: MemoryStore, multiscales: Multiscales, enabledRfcs: number[] | undefined, writeImage: (group: zarr.Group<MemoryStore>, image: NgffImage, path: string) => Promise<void>): Promise<void>;
+export declare function writeMultiscalesToMemoryStore(store: MemoryStore, multiscales: Multiscales, enabledRfcs: number[] | undefined, writeImage: (group: zarr.Group<MemoryStore>, image: NgffImage, path: string, onProgress?: ((completedChunks: number, totalChunks: number) => void) | null) => Promise<void>, onProgress?: ((completedChunks: number, totalChunks: number) => void) | null): Promise<void>;
 //# sourceMappingURL=to_ngff_zarr_ozx_common.d.ts.map

package/esm/io/to_ngff_zarr_ozx_common.d.ts.map

@@ -1 +1 @@
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package/esm/io/to_ngff_zarr_ozx_common.js

@@ -73,6 +73,18 @@ export function prepareRfc9Metadata(multiscales, enabledRfcs) {
         }),
     };
 }
+/**
+ * Get chunks from an NgffImage, falling back to default chunk size if not specified.
+ *
+ * @param image - NgffImage to get chunks from
+ * @returns Array of chunk sizes for each dimension
+ */
+function getChunksFromImage(image) {
+    if (image.data.chunks && image.data.chunks.length > 0) {
+        return image.data.chunks;
+    }
+    return image.data.shape.map((s) => Math.min(s, 1024));
+}
 /**
  * Create root group attributes for RFC-9 export.
  *
@@ -102,8 +114,10 @@ export function createRfc9RootAttributes(multiscalesMetadata, multiscales) {
  * @param multiscales - Multiscales data to write
  * @param enabledRfcs - Optional list of RFC numbers to enable
  * @param writeImage - Function to write individual images
+ * @param onProgress - Optional progress callback for cumulative chunk
+ *   progress across all scale levels
  */
-export async function writeMultiscalesToMemoryStore(store, multiscales, enabledRfcs, writeImage) {
+export async function writeMultiscalesToMemoryStore(store, multiscales, enabledRfcs, writeImage, onProgress) {
     // Validate version
     validateRfc9Version(multiscales);
     // Create root location and group with zarrita API
@@ -113,14 +127,45 @@ export async function writeMultiscalesToMemoryStore(store, multiscales, enabledR
     // Create root attributes
     const attributes = createRfc9RootAttributes(multiscalesMetadata, multiscales);
     const rootGroup = await zarr.create(root, { attributes });
+    // Pre-calculate total chunk count across all images for cumulative progress
+    let totalChunks = 0;
+    if (onProgress) {
+        for (const image of multiscales.images) {
+            const shape = image.data.shape;
+            const chunks = getChunksFromImage(image);
+            let imageChunks = 1;
+            for (let d = 0; d < shape.length; d++) {
+                imageChunks *= Math.ceil(shape[d] / chunks[d]);
+            }
+            totalChunks += imageChunks;
+        }
+    }
     // Write each image in the multiscales
+    let completedChunks = 0;
     for (let i = 0; i < multiscales.images.length; i++) {
         const image = multiscales.images[i];
         const dataset = multiscales.metadata.datasets[i];
         if (!dataset) {
             throw new Error(`No dataset configuration found for image ${i}`);
         }
-        await writeImage(rootGroup, image, dataset.path);
+        // Create a per-image progress wrapper that reports cumulative progress
+        const imageOffset = completedChunks;
+        const imageProgress = onProgress
+            ? (completed, _imageTotal) => {
+                onProgress(imageOffset + completed, totalChunks);
+            }
+            : null;
+        await writeImage(rootGroup, image, dataset.path, imageProgress);
+        // Update cumulative offset for next image
+        if (onProgress) {
+            const shape = image.data.shape;
+            const chunks = getChunksFromImage(image);
+            let imageChunkCount = 1;
+            for (let d = 0; d < shape.length; d++) {
+                imageChunkCount *= Math.ceil(shape[d] / chunks[d]);
+            }
+            completedChunks += imageChunkCount;
+        }
     }
 }
 //# sourceMappingURL=to_ngff_zarr_ozx_common.js.map

package/esm/io/to_ngff_zarr_ozx_common.js.map

@@ -1 +1 @@
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package/esm/utils/compute_omero-shared.d.ts

@@ -99,6 +99,13 @@ export interface ComputeOmeroOptions {
      * and set(key, value) works — a plain Map is the simplest option.
      */
     cache?: import("@fideus-labs/fizarrita").ChunkCache | undefined;
+    /**
+     * Optional progress callback invoked after each chunk is processed.
+     *
+     * @param completedChunks - Number of chunks processed so far
+     * @param totalChunks - Total number of chunks to process
+     */
+    onProgress?: ((completedChunks: number, totalChunks: number) => void) | undefined;
 }
 /**
  * Options for computing OMERO metadata from multiscales.

package/esm/utils/compute_omero-shared.d.ts.map

@@ -1 +1 @@
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package/esm/utils/compute_omero-shared.js.map

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package/esm/utils/compute_omero.d.ts

@@ -1,5 +1,5 @@
-import type { NgffImage } from "../types/ngff_image.js";
 import type { Multiscales } from "../types/multiscales.js";
+import type { NgffImage } from "../types/ngff_image.js";
 import type { Omero } from "../types/zarr_metadata.js";
 import { type ComputeOmeroFromMultiscalesOptions, type ComputeOmeroOptions } from "./compute_omero-shared.js";
 export { computeChannelStatistics, type ComputeOmeroFromMultiscalesOptions, type ComputeOmeroOptions, extractChannel, getDefaultColors, GLASBEY_COLORS, QUANTILE_SAMPLE_SIZE, validateColor, validateQuantiles, } from "./compute_omero-shared.js";

package/esm/utils/compute_omero.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"compute_omero.d.ts","sourceRoot":"","sources":["../../src/utils/compute_omero.ts"],"names":[],"mappings":"AAkBA,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,yBAAyB,CAAC;AAC3D,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,wBAAwB,CAAC;AACxD,OAAO,KAAK,EAAE,KAAK,EAAE,MAAM,2BAA2B,CAAC;AACvD,OAAO,EAGL,KAAK,kCAAkC,EACvC,KAAK,mBAAmB,EAOzB,MAAM,2BAA2B,CAAC;AAInC,OAAO,EACL,wBAAwB,EACxB,KAAK,kCAAkC,EACvC,KAAK,mBAAmB,EACxB,cAAc,EACd,gBAAgB,EAChB,cAAc,EACd,oBAAoB,EACpB,aAAa,EACb,iBAAiB,GAClB,MAAM,2BAA2B,CAAC;AAuCnC;;;GAGG;AACH,wBAAgB,wBAAwB,IAAI,IAAI,CAS/C;AA2QD;;;;;;;;;;GAUG;AACH,wBAAsB,yBAAyB,CAC7C,KAAK,EAAE,SAAS,EAChB,OAAO,GAAE,mBAAwB,GAChC,OAAO,CAAC,KAAK,CAAC,CA0KhB;AAMD;;;;;;;;;GASG;AACH,wBAAsB,2BAA2B,CAC/C,WAAW,EAAE,WAAW,EACxB,OAAO,GAAE,kCAAuC,GAC/C,OAAO,CAAC,KAAK,CAAC,CAuBhB"}

package/esm/utils/compute_omero.js

@@ -1,15 +1,7 @@
 // SPDX-FileCopyrightText: Copyright (c) Fideus Labs LLC
 // SPDX-License-Identifier: MIT
-/**
- * Unified OMERO metadata computation using @fideus-labs/worker-pool.
- *
- * Works in Node.js, Deno, and browser environments. Each zarr chunk is
- * decoded and its per-channel statistics computed in parallel via a
- * WorkerPool. Decoded chunks are cached so that a subsequent zarrGet()
- * with the same cache avoids redundant decompression.
- */
-import { WorkerPool } from "@fideus-labs/worker-pool";
 import { createCacheKey, readArrayMetadata } from "@fideus-labs/fizarrita";
+import { WorkerPool } from "@fideus-labs/worker-pool";
 import { buildOmeroFromAccumulators, createAccumulator, extractChannel, mergeAccumulators, updateAccumulator, validateColor, validateQuantiles, } from "./compute_omero-shared.js";
 import { getMetaId, workerDecodeAndStats } from "./omero_worker_rpc.js";
 // Re-export shared utilities for backward compatibility
@@ -18,7 +10,7 @@ export { computeChannelStatistics, extractChannel, getDefaultColors, GLASBEY_COL
 // Worker pool for omero computation
 // ---------------------------------------------------------------------------
 /** Pool size for the omero worker pool. */
-const POOL_SIZE = Math.min(typeof navigator !== "undefined" ? (navigator?.hardwareConcurrency || 4) : 4, 128);
+const POOL_SIZE = Math.min(typeof navigator !== "undefined" ? navigator?.hardwareConcurrency || 4 : 4, 128);
 /** Blob URL used by inlined browser builds — set by inline_worker.ts. */
 let workerBlobUrl = null;
 let _omeroPool = null;
@@ -345,7 +337,7 @@ export async function computeOmeroFromNgffImage(image, options = {}) {
     // Execute all tasks with bounded concurrency
     let allAccumulators;
     if (tasks.length > 0) {
-        const { promise } = pool.runTasks(tasks);
+        const { promise } = pool.runTasks(tasks, options.onProgress ?? null);
         allAccumulators = await promise;
     }
     else {
@@ -391,6 +383,9 @@ export async function computeOmeroFromMultiscales(multiscales, options = {}) {
     if (options.labels !== undefined) {
         computeOptions.labels = options.labels;
     }
+    if (options.onProgress !== undefined) {
+        computeOptions.onProgress = options.onProgress;
+    }
     return await computeOmeroFromNgffImage(image, computeOptions);
 }
 //# sourceMappingURL=compute_omero.js.map

package/esm/utils/compute_omero.js.map

@@ -1 +1 @@
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package/esm/utils/worker_pool.d.ts

@@ -1,3 +1,15 @@
+/**
+ * Centralized worker pool for zarrita get/set operations.
+ *
+ * Provides two pools:
+ * - **Codec pool**: Used internally by `getWorker`/`setWorker` from fizarrita
+ *   for offloading codec encode/decode to Web Workers.
+ * - **Write scheduling pool**: Used by `createWriteQueue()` for bounding
+ *   concurrent chunk-level write pipelines (get + transform + set).
+ *
+ * Both pools are lazily initialized singletons with pool size
+ * `Math.min(navigator?.hardwareConcurrency || 4, 128)`.
+ */
 import type { GetWorkerOptions, SetWorkerOptions } from "@fideus-labs/fizarrita";
 import type { Array as ZarrArray, Chunk, DataType, Mutable, Readable, Scalar, Slice } from "zarrita";
 export type { ChunkCache } from "@fideus-labs/fizarrita";
@@ -22,10 +34,12 @@ export declare function zarrGet<D extends DataType, Store extends Readable, Sel
  * fizarrita (e.g. sharding_indexed).
  */
 export declare function zarrSet<D extends DataType>(arr: ZarrArray<D, Mutable>, selection: (number | Slice | null)[] | null, value: Scalar<D> | Chunk<D>, opts?: Partial<SetWorkerOptions>): Promise<void>;
+/** Progress callback for chunk-level progress reporting. */
+export type ChunkProgressCallback = (completedChunks: number, totalChunks: number) => void;
 /** Interface for chunk write scheduling queue. */
 export type ChunkQueue = {
     add(fn: () => Promise<void>): void;
-    onIdle(): Promise<void>;
+    onIdle(onProgress?: ChunkProgressCallback | null): Promise<void>;
 };
 /**
  * Create a bounded-concurrency queue for chunk write scheduling.

package/esm/utils/worker_pool.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"worker_pool.d.ts","sourceRoot":"","sources":["../../src/utils/worker_pool.ts"],"names":[],"mappings":"AAGA;;;;;;;;;;;GAWG;AAEH,OAAO,KAAK,EACV,gBAAgB,EAChB,gBAAgB,EACjB,MAAM,wBAAwB,CAAC;AAIhC,OAAO,KAAK,EACV,KAAK,IAAI,SAAS,EAClB,KAAK,EACL,QAAQ,EACR,OAAO,EACP,QAAQ,EACR,MAAM,EACN,KAAK,EACN,MAAM,SAAS,CAAC;AAGjB,YAAY,EAAE,UAAU,EAAE,MAAM,wBAAwB,CAAC;AA8GzD,KAAK,SAAS,CACZ,CAAC,SAAS,QAAQ,EAClB,GAAG,SAAS,CAAC,IAAI,GAAG,KAAK,GAAG,MAAM,CAAC,EAAE,IACnC,IAAI,SAAS,GAAG,CAAC,MAAM,CAAC,GAAG,KAAK,CAAC,CAAC,CAAC,GACnC,KAAK,SAAS,GAAG,CAAC,MAAM,CAAC,GAAG,KAAK,CAAC,CAAC,CAAC,GACpC,MAAM,CAAC,CAAC,CAAC,CAAC;AAEd;;;;;;;;GAQG;AACH,wBAAsB,OAAO,CAC3B,CAAC,SAAS,QAAQ,EAClB,KAAK,SAAS,QAAQ,EACtB,GAAG,SAAS,CAAC,IAAI,GAAG,KAAK,GAAG,MAAM,CAAC,EAAE,EAErC,GAAG,EAAE,SAAS,CAAC,CAAC,EAAE,KAAK,CAAC,EACxB,SAAS,CAAC,EAAE,GAAG,GAAG,IAAI,EACtB,IAAI,CAAC,EAAE,OAAO,CAAC,gBAAgB,CAAC,OAAO,CAAC,CAAC,GACxC,OAAO,CAAC,SAAS,CAAC,CAAC,EAAE,GAAG,CAAC,CAAC,CA+B5B;AAED;;;;;;;;GAQG;AACH,wBAAsB,OAAO,CAAC,CAAC,SAAS,QAAQ,EAC9C,GAAG,EAAE,SAAS,CAAC,CAAC,EAAE,OAAO,CAAC,EAC1B,SAAS,EAAE,CAAC,MAAM,GAAG,KAAK,GAAG,IAAI,CAAC,EAAE,GAAG,IAAI,EAC3C,KAAK,EAAE,MAAM,CAAC,CAAC,CAAC,GAAG,KAAK,CAAC,CAAC,CAAC,EAC3B,IAAI,CAAC,EAAE,OAAO,CAAC,gBAAgB,CAAC,GAC/B,OAAO,CAAC,IAAI,CAAC,CA+Bf;AAMD,4DAA4D;AAC5D,MAAM,MAAM,qBAAqB,GAAG,CAClC,eAAe,EAAE,MAAM,EACvB,WAAW,EAAE,MAAM,KAChB,IAAI,CAAC;AAEV,kDAAkD;AAClD,MAAM,MAAM,UAAU,GAAG;IACvB,GAAG,CAAC,EAAE,EAAE,MAAM,OAAO,CAAC,IAAI,CAAC,GAAG,IAAI,CAAC;IACnC,MAAM,CAAC,UAAU,CAAC,EAAE,qBAAqB,GAAG,IAAI,GAAG,OAAO,CAAC,IAAI,CAAC,CAAC;CAClE,CAAC;AAEF;;;;;;;;GAQG;AACH,wBAAgB,gBAAgB,IAAI,UAAU,CAuB7C;AAMD;;;;;GAKG;AACH,wBAAgB,mBAAmB,IAAI,IAAI,CAS1C"}

package/esm/utils/worker_pool.js

@@ -1,19 +1,7 @@
 // SPDX-FileCopyrightText: Copyright (c) Fideus Labs LLC
 // SPDX-License-Identifier: MIT
-/**
- * Centralized worker pool for zarrita get/set operations.
- *
- * Provides two pools:
- * - **Codec pool**: Used internally by `getWorker`/`setWorker` from fizarrita
- *   for offloading codec encode/decode to Web Workers.
- * - **Write scheduling pool**: Used by `createWriteQueue()` for bounding
- *   concurrent chunk-level write pipelines (get + transform + set).
- *
- * Both pools are lazily initialized singletons with pool size
- * `Math.min(navigator?.hardwareConcurrency || 4, 128)`.
- */
-import { WorkerPool } from "@fideus-labs/worker-pool";
 import { getWorker, setWorker } from "@fideus-labs/fizarrita";
+import { WorkerPool } from "@fideus-labs/worker-pool";
 import * as zarr from "zarrita";
 /** Pool size for both codec and write scheduling pools. */
 const POOL_SIZE = Math.min((typeof navigator !== "undefined" && navigator?.hardwareConcurrency) || 4, 128);
@@ -102,7 +90,7 @@ export async function zarrGet(arr, selection, opts) {
     // (e.g. sharding_indexed). Avoids Worker creation that can hang on
     // some platforms (Windows CI).
     if (await hasUnsupportedCodecs(arr)) {
-        return await zarr.get(arr, selection);
+        return (await zarr.get(arr, selection));
     }
     try {
         const mergedOpts = {
@@ -116,8 +104,9 @@ export async function zarrGet(arr, selection, opts) {
     }
     catch (err) {
         // Fallback to zarr.get() for unsupported codecs (e.g. sharding_indexed)
-        if (err instanceof Error && /(?:unsupported|unknown) codec/i.test(err.message)) {
-            return await zarr.get(arr, selection);
+        if (err instanceof Error &&
+            /(?:unsupported|unknown) codec/i.test(err.message)) {
+            return (await zarr.get(arr, selection));
         }
         throw err;
     }
@@ -182,11 +171,11 @@ export function createWriteQueue() {
                 };
             });
         },
-        async onIdle() {
+        async onIdle(onProgress) {
             if (tasks.length === 0)
                 return;
             const batch = tasks.splice(0, tasks.length);
-            const { promise } = pool.runTasks(batch);
+            const { promise } = pool.runTasks(batch, onProgress ?? null);
             await promise;
         },
     };

package/esm/utils/worker_pool.js.map

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package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@fideus-labs/ngff-zarr",
-  "version": "0.9.0",
+  "version": "0.11.0",
   "description": "TypeScript implementation of ngff-zarr for reading and writing OME-Zarr files",
   "license": "MIT",
   "type": "module",