@arke-institute/sdk 2.2.0 → 2.3.1

package/dist/operations/index.d.ts

@@ -1,5 +1,5 @@
-import { A as ArkeClient, j as UploadTree, k as UploadOptions, l as UploadResult } from '../crypto-7c990p-j.js';
-export { f as BatchCreateOptions, B as BatchOperations, h as BatchResult, p as CreatedEntity, C as CryptoOperations, F as FolderOperations, K as KeyPair, S as SignedPayload, d as UploadDirectoryOptions, e as UploadDirectoryResult, m as UploadFile, n as UploadFolder, U as UploadProgress, o as UploadTarget } from '../crypto-7c990p-j.js';
+import { A as ArkeClient, j as UploadTree, k as UploadOptions, l as UploadResult } from '../crypto-Dz2ktRy4.js';
+export { f as BatchCreateOptions, B as BatchOperations, h as BatchResult, p as CreatedEntity, C as CryptoOperations, F as FolderOperations, K as KeyPair, S as SignedPayload, d as UploadDirectoryOptions, e as UploadDirectoryResult, m as UploadFile, n as UploadFolder, U as UploadProgress, o as UploadTarget } from '../crypto-Dz2ktRy4.js';
 import 'openapi-fetch';
 import '../generated/index.js';
 
@@ -7,17 +7,15 @@ import '../generated/index.js';
  * Upload Engine
  *
  * Core upload implementation optimized for fast tree visibility:
- * 1. Compute CIDs for all files (high parallelism)
- * 2. Create folders by depth (with unidirectional 'in' → parent)
- * 3. Create file entities (metadata only, high parallelism)
- * 4. Backlink parents with 'contains' relationships
+ * 1. Create folders by depth (with unidirectional 'in' → parent)
+ * 2. Create file entities (metadata only, high parallelism)
+ * 3. Backlink parents with 'contains' relationships
  *    → Tree is now browsable! Users can explore structure immediately.
- * 5. Upload file content to S3 + confirm (byte-based pool, ~200MB in flight)
- *    - PUT to presigned S3 URL
- *    - POST /files/{id}/confirm-upload to set uploaded: true
- *    - Auto-retry on CAS conflict (entity may have changed during upload)
+ * 4. Upload file content via POST /files/{id}/content (byte-based pool, ~200MB in flight)
+ *    - Direct upload to API endpoint
+ *    - API streams to R2, computes CID, updates entity atomically
  *
- * Byte-based pool (for S3 uploads):
+ * Byte-based pool (for uploads):
  * - Maintains ~200MB of data in flight at all times
  * - When a file completes, next file starts immediately (no gaps)
  * - Small files: Many upload in parallel
@@ -41,6 +39,11 @@ declare function uploadTree(client: ArkeClient, tree: UploadTree, options: Uploa
  *
  * Computes IPFS CIDv1 (base32) for file content.
  * Uses raw codec (0x55) and SHA-256 hash.
+ *
+ * Note: This module is not used internally by the upload engine (the server
+ * computes CIDs from uploaded content). It is exported for convenience in case
+ * you want to verify entity CIDs, detect duplicates before upload, or perform
+ * other content-addressed operations.
  */
 /**
  * Compute CIDv1 for binary content.

package/dist/operations/index.js

@@ -1,35 +1,11 @@
-// src/operations/upload/cid.ts
-import { CID } from "multiformats/cid";
-import { sha256 } from "multiformats/hashes/sha2";
-import * as raw from "multiformats/codecs/raw";
-async function computeCid(data) {
-  let bytes;
-  if (data instanceof Blob) {
-    const buffer = await data.arrayBuffer();
-    bytes = new Uint8Array(buffer);
-  } else if (data instanceof ArrayBuffer) {
-    bytes = new Uint8Array(data);
-  } else {
-    bytes = data;
-  }
-  const hash = await sha256.digest(bytes);
-  const cid = CID.create(1, raw.code, hash);
-  return cid.toString();
-}
-async function verifyCid(data, expectedCid) {
-  const computed = await computeCid(data);
-  return computed === expectedCid;
-}
-
 // src/operations/upload/engine.ts
-var PHASE_COUNT = 4;
+var PHASE_COUNT = 3;
 var PHASE_INDEX = {
-  "computing-cids": 0,
-  "creating": 1,
-  "backlinking": 2,
-  "uploading": 3,
-  "complete": 4,
-  "error": -1
+  creating: 0,
+  backlinking: 1,
+  uploading: 2,
+  complete: 3,
+  error: -1
 };
 async function parallelLimit(items, concurrency, fn) {
   const results = [];
@@ -92,13 +68,10 @@ async function uploadTree(client, tree, options) {
   let bytesUploaded = 0;
   const reportProgress = (progress) => {
     if (onProgress) {
-      const phase = progress.phase || "computing-cids";
+      const phase = progress.phase || "creating";
       const phaseIndex = PHASE_INDEX[phase] ?? -1;
       let phasePercent = 0;
-      if (phase === "computing-cids") {
-        const done = progress.completedEntities ?? completedEntities;
-        phasePercent = tree.files.length > 0 ? Math.round(done / tree.files.length * 100) : 100;
-      } else if (phase === "creating") {
+      if (phase === "creating") {
         const done = progress.completedEntities ?? completedEntities;
         phasePercent = totalEntities > 0 ? Math.round(done / totalEntities * 100) : 100;
       } else if (phase === "backlinking") {
@@ -159,29 +132,6 @@ async function uploadTree(client, tree, options) {
       throw new Error("Must provide either collectionId or createCollection in target");
     }
     const rootParentId = target.parentId ?? collectionId;
-    reportProgress({ phase: "computing-cids", completedEntities: 0 });
-    const preparedFiles = [];
-    let cidProgress = 0;
-    await parallelLimit(tree.files, Math.max(concurrency, 20), async (file) => {
-      try {
-        const data = await file.getData();
-        const cid = await computeCid(data);
-        preparedFiles.push({ ...file, cid });
-        cidProgress++;
-        reportProgress({
-          phase: "computing-cids",
-          completedEntities: cidProgress,
-          currentItem: file.relativePath
-        });
-      } catch (err) {
-        const errorMsg = err instanceof Error ? err.message : String(err);
-        if (continueOnError) {
-          errors.push({ path: file.relativePath, error: `CID computation failed: ${errorMsg}` });
-        } else {
-          throw new Error(`Failed to compute CID for ${file.relativePath}: ${errorMsg}`);
-        }
-      }
-    });
     reportProgress({ phase: "creating", completedEntities: 0 });
     const foldersByDepth = groupFoldersByDepth(tree.folders);
     const sortedDepths = [...foldersByDepth.keys()].sort((a, b) => a - b);
@@ -231,17 +181,17 @@ async function uploadTree(client, tree, options) {
       );
     }
     const FILE_CREATION_CONCURRENCY = 50;
-    await parallelLimit(preparedFiles, FILE_CREATION_CONCURRENCY, async (file) => {
+    await parallelLimit(tree.files, FILE_CREATION_CONCURRENCY, async (file) => {
       try {
         const parentPath = getParentPath(file.relativePath);
         const parentId = parentPath ? foldersByPath.get(parentPath).id : rootParentId;
         const parentType = parentPath ? "folder" : parentId === collectionId ? "collection" : "folder";
         const fileBody = {
-          key: file.cid,
+          key: crypto.randomUUID(),
+          // Generate unique storage key
           filename: file.name,
           content_type: file.mimeType,
           size: file.size,
-          cid: file.cid,
           collection: collectionId,
           relationships: [{ predicate: "in", peer: parentId, peer_type: parentType }]
         };
@@ -254,9 +204,7 @@ async function uploadTree(client, tree, options) {
         createdFiles.push({
           ...file,
           id: data.id,
-          entityCid: data.cid,
-          uploadUrl: data.upload_url,
-          uploadExpiresAt: data.upload_expires_at
+          entityCid: data.cid
         });
         completedEntities++;
         reportProgress({
@@ -372,44 +320,14 @@ async function uploadTree(client, tree, options) {
             } else {
               body = new Blob([fileData], { type: file.mimeType });
             }
-            const uploadResponse = await fetch(file.uploadUrl, {
-              method: "PUT",
+            const { error: uploadError } = await client.api.POST("/files/{id}/content", {
+              params: { path: { id: file.id } },
               body,
+              bodySerializer: (b) => b,
               headers: { "Content-Type": file.mimeType }
             });
-            if (!uploadResponse.ok) {
-              throw new Error(`S3 upload failed with status ${uploadResponse.status}`);
-            }
-            let confirmTip = file.entityCid;
-            let confirmAttempts = 0;
-            const MAX_CONFIRM_ATTEMPTS = 3;
-            while (confirmAttempts < MAX_CONFIRM_ATTEMPTS) {
-              confirmAttempts++;
-              const { error: confirmError } = await client.api.POST("/files/{id}/confirm-upload", {
-                params: { path: { id: file.id } },
-                body: {
-                  expect_tip: confirmTip,
-                  note: note ? `${note} (confirmed)` : "Upload confirmed"
-                }
-              });
-              if (!confirmError) {
-                break;
-              }
-              const errorStr = JSON.stringify(confirmError);
-              if (errorStr.includes("409") || errorStr.includes("CAS") || errorStr.includes("conflict")) {
-                const { data: currentFile, error: fetchError } = await client.api.GET("/files/{id}", {
-                  params: { path: { id: file.id } }
-                });
-                if (fetchError || !currentFile) {
-                  throw new Error(`Failed to fetch file for confirm retry: ${JSON.stringify(fetchError)}`);
-                }
-                confirmTip = currentFile.cid;
-              } else {
-                throw new Error(`Confirm upload failed: ${errorStr}`);
-              }
-            }
-            if (confirmAttempts >= MAX_CONFIRM_ATTEMPTS) {
-              throw new Error(`Confirm upload failed after ${MAX_CONFIRM_ATTEMPTS} CAS retries`);
+            if (uploadError) {
+              throw new Error(`Upload failed: ${JSON.stringify(uploadError)}`);
             }
             bytesUploaded += file.size;
             reportProgress({
@@ -482,6 +400,29 @@ async function uploadTree(client, tree, options) {
   }
 }
 
+// src/operations/upload/cid.ts
+import { CID } from "multiformats/cid";
+import { sha256 } from "multiformats/hashes/sha2";
+import * as raw from "multiformats/codecs/raw";
+async function computeCid(data) {
+  let bytes;
+  if (data instanceof Blob) {
+    const buffer = await data.arrayBuffer();
+    bytes = new Uint8Array(buffer);
+  } else if (data instanceof ArrayBuffer) {
+    bytes = new Uint8Array(data);
+  } else {
+    bytes = data;
+  }
+  const hash = await sha256.digest(bytes);
+  const cid = CID.create(1, raw.code, hash);
+  return cid.toString();
+}
+async function verifyCid(data, expectedCid) {
+  const computed = await computeCid(data);
+  return computed === expectedCid;
+}
+
 // src/operations/upload/scanners.ts
 function getMimeType(filename) {
   const ext = filename.toLowerCase().split(".").pop() || "";
@@ -739,7 +680,7 @@ var FolderOperations = class {
       concurrency: options.concurrency,
       onProgress: options.onProgress ? (p) => {
         options.onProgress({
-          phase: p.phase === "computing-cids" ? "creating-folders" : p.phase === "creating" ? "uploading-files" : p.phase === "backlinking" ? "linking" : p.phase === "complete" ? "complete" : "scanning",
+          phase: p.phase === "creating" ? "creating-folders" : p.phase === "uploading" ? "uploading-files" : p.phase === "backlinking" ? "linking" : p.phase === "complete" ? "complete" : "scanning",
           totalFiles: p.totalEntities,
           completedFiles: p.completedEntities,
           totalFolders: p.totalParents,

package/dist/operations/index.js.map

@@ -1 +1 @@
-{"version":3,"sources":["../../src/operations/upload/cid.ts","../../src/operations/upload/engine.ts","../../src/operations/upload/scanners.ts","../../src/operations/folders.ts","../../src/operations/batch.ts","../../src/operations/crypto.ts"],"sourcesContent":["/**\n * CID Computation Utility\n *\n * Computes IPFS CIDv1 (base32) for file content.\n * Uses raw codec (0x55) and SHA-256 hash.\n */\n\nimport { CID } from 'multiformats/cid';\nimport { sha256 } from 'multiformats/hashes/sha2';\nimport * as raw from 'multiformats/codecs/raw';\n\n/**\n * Compute CIDv1 for binary content.\n * Returns base32 encoded string (bafk... prefix for raw codec).\n *\n * @param data - Binary content as ArrayBuffer, Uint8Array, or Blob\n * @returns CIDv1 string in base32 encoding\n *\n * @example\n * ```typescript\n * const cid = await computeCid(new TextEncoder().encode('hello world'));\n * // Returns: \"bafkreifzjut3te2nhyekklss27nh3k72ysco7y32koao5eei66wof36n5e\"\n * ```\n */\nexport async function computeCid(data: ArrayBuffer | Uint8Array | Blob): Promise<string> {\n  // Convert to Uint8Array\n  let bytes: Uint8Array;\n\n  if (data instanceof Blob) {\n    const buffer = await data.arrayBuffer();\n    bytes = new Uint8Array(buffer);\n  } else if (data instanceof ArrayBuffer) {\n    bytes = new Uint8Array(data);\n  } else {\n    bytes = data;\n  }\n\n  // Compute SHA-256 hash\n  const hash = await sha256.digest(bytes);\n\n  // Create CIDv1 with raw codec\n  const cid = CID.create(1, raw.code, hash);\n\n  // Return base32 encoded string\n  return cid.toString();\n}\n\n/**\n * Verify a CID matches the content.\n *\n * @param data - Binary content\n * @param expectedCid - CID to verify against\n * @returns true if CID matches\n */\nexport async function verifyCid(\n  data: ArrayBuffer | Uint8Array | Blob,\n  expectedCid: string\n): Promise<boolean> {\n  const computed = await computeCid(data);\n  return computed === expectedCid;\n}\n","/**\n * Upload Engine\n *\n * Core upload implementation optimized for fast tree visibility:\n * 1. Compute CIDs for all files (high parallelism)\n * 2. Create folders by depth (with unidirectional 'in' → parent)\n * 3. Create file entities (metadata only, high parallelism)\n * 4. Backlink parents with 'contains' relationships\n *    → Tree is now browsable! Users can explore structure immediately.\n * 5. Upload file content to S3 + confirm (byte-based pool, ~200MB in flight)\n *    - PUT to presigned S3 URL\n *    - POST /files/{id}/confirm-upload to set uploaded: true\n *    - Auto-retry on CAS conflict (entity may have changed during upload)\n *\n * Byte-based pool (for S3 uploads):\n * - Maintains ~200MB of data in flight at all times\n * - When a file completes, next file starts immediately (no gaps)\n * - Small files: Many upload in parallel\n * - Large files: Fewer upload in parallel (bandwidth-limited)\n * - Single file > 200MB: Uploads alone when pool is empty\n *\n * This minimizes time-to-browse by:\n * - Creating all entities before uploading content\n * - Using unidirectional 'in' relationship on entity creation\n * - Adding all 'contains' relationships in a single PUT per parent\n */\n\nimport type { ArkeClient } from '../../client/ArkeClient.js';\nimport type { components } from '../../generated/types.js';\nimport { computeCid } from './cid.js';\nimport type {\n  UploadTree,\n  UploadOptions,\n  UploadResult,\n  UploadProgress,\n  PreparedFile,\n  CreatedFolder,\n  CreatedFile,\n  CreatedEntity,\n  UploadFolder,\n} from './types.js';\n\ntype CreateCollectionRequest = components['schemas']['CreateCollectionRequest'];\ntype CreateFolderRequest = components['schemas']['CreateFolderRequest'];\ntype CreateFileRequest = components['schemas']['CreateFileRequest'];\ntype UpdateFolderRequest = components['schemas']['UpdateFolderRequest'];\ntype UpdateCollectionRequest = components['schemas']['UpdateCollectionRequest'];\n\n// Phase constants\nconst PHASE_COUNT = 4; // computing-cids, creating, backlinking, uploading (excluding complete/error)\nconst PHASE_INDEX: Record<string, number> = {\n  'computing-cids': 0,\n  'creating': 1,\n  'backlinking': 2,\n  'uploading': 3,\n  'complete': 4,\n  'error': -1,\n};\n\n// =============================================================================\n// Concurrency Utilities\n// =============================================================================\n\n/**\n * Simple concurrency limiter for parallel operations.\n */\nasync function parallelLimit<T, R>(\n  items: T[],\n  concurrency: number,\n  fn: (item: T, index: number) => Promise<R>\n): Promise<R[]> {\n  const results: R[] = [];\n  let index = 0;\n\n  async function worker(): Promise<void> {\n    while (index < items.length) {\n      const currentIndex = index++;\n      const item = items[currentIndex]!;\n      results[currentIndex] = await fn(item, currentIndex);\n    }\n  }\n\n  const workers = Array.from({ length: Math.min(concurrency, items.length) }, () => worker());\n  await Promise.all(workers);\n\n  return results;\n}\n\n// =============================================================================\n// Byte-Based Pool\n// =============================================================================\n\n/** Target bytes in flight (~200MB) */\nconst TARGET_BYTES_IN_FLIGHT = 200 * 1024 * 1024;\n\n/**\n * Pool that maintains a target number of bytes in flight.\n *\n * When a file completes, its bytes are released and the next\n * waiting file can start immediately. This keeps the pipeline full.\n *\n * - Small files: Many run in parallel (up to ~200MB worth)\n * - Large files: Fewer run in parallel\n * - Single file > 200MB: Runs alone (allowed when pool is empty)\n */\nclass BytePool {\n  private bytesInFlight = 0;\n  private waitQueue: Array<() => void> = [];\n\n  constructor(private targetBytes: number = TARGET_BYTES_IN_FLIGHT) {}\n\n  async run<T>(size: number, fn: () => Promise<T>): Promise<T> {\n    // Wait until we have room\n    // Exception: if pool is empty, always allow (handles files > targetBytes)\n    while (this.bytesInFlight > 0 && this.bytesInFlight + size > this.targetBytes) {\n      await new Promise<void>((resolve) => this.waitQueue.push(resolve));\n    }\n\n    this.bytesInFlight += size;\n    try {\n      return await fn();\n    } finally {\n      this.bytesInFlight -= size;\n      // Wake up next waiting task\n      const next = this.waitQueue.shift();\n      if (next) next();\n    }\n  }\n}\n\n// =============================================================================\n// Helper Functions\n// =============================================================================\n\n/**\n * Parse folder path to get parent path.\n * e.g., \"docs/images/photos\" -> \"docs/images\"\n */\nfunction getParentPath(relativePath: string): string | null {\n  const lastSlash = relativePath.lastIndexOf('/');\n  if (lastSlash === -1) return null;\n  return relativePath.slice(0, lastSlash);\n}\n\n/**\n * Group folders by depth level.\n */\nfunction groupFoldersByDepth(folders: UploadFolder[]): Map<number, UploadFolder[]> {\n  const byDepth = new Map<number, UploadFolder[]>();\n\n  for (const folder of folders) {\n    const depth = folder.relativePath.split('/').length - 1;\n    if (!byDepth.has(depth)) byDepth.set(depth, []);\n    byDepth.get(depth)!.push(folder);\n  }\n\n  return byDepth;\n}\n\n// =============================================================================\n// Main Upload Function\n// =============================================================================\n\n/**\n * Main upload function.\n * Orchestrates the entire upload process with optimized relationship strategy.\n */\nexport async function uploadTree(\n  client: ArkeClient,\n  tree: UploadTree,\n  options: UploadOptions\n): Promise<UploadResult> {\n  const { target, onProgress, concurrency = 10, continueOnError = false, note } = options;\n\n  const errors: Array<{ path: string; error: string }> = [];\n  const createdFolders: CreatedFolder[] = [];\n  const createdFiles: CreatedFile[] = [];\n\n  // Maps for tracking\n  const foldersByPath = new Map<string, { id: string; cid: string }>();\n\n  // Calculate totals\n  const totalEntities = tree.files.length + tree.folders.length;\n  const totalBytes = tree.files.reduce((sum, f) => sum + f.size, 0);\n  let completedEntities = 0;\n  let bytesUploaded = 0;\n\n  // Helper to report progress\n  const reportProgress = (progress: Partial<UploadProgress>) => {\n    if (onProgress) {\n      const phase = progress.phase || 'computing-cids';\n      const phaseIndex = PHASE_INDEX[phase] ?? -1;\n\n      // Calculate phase percent based on current phase\n      let phasePercent = 0;\n      if (phase === 'computing-cids') {\n        // CID phase: progress is based on files processed\n        const done = progress.completedEntities ?? completedEntities;\n        phasePercent = tree.files.length > 0 ? Math.round((done / tree.files.length) * 100) : 100;\n      } else if (phase === 'creating') {\n        // Creating phase: progress is based on entities created\n        const done = progress.completedEntities ?? completedEntities;\n        phasePercent = totalEntities > 0 ? Math.round((done / totalEntities) * 100) : 100;\n      } else if (phase === 'backlinking') {\n        // Backlinking phase: progress is based on parents updated\n        const done = progress.completedParents ?? 0;\n        const total = progress.totalParents ?? 0;\n        phasePercent = total > 0 ? Math.round((done / total) * 100) : 100;\n      } else if (phase === 'uploading') {\n        // Uploading phase: progress is based on bytes uploaded\n        const done = progress.bytesUploaded ?? bytesUploaded;\n        phasePercent = totalBytes > 0 ? Math.round((done / totalBytes) * 100) : 100;\n      } else if (phase === 'complete') {\n        phasePercent = 100;\n      }\n\n      onProgress({\n        phase,\n        phaseIndex,\n        phaseCount: PHASE_COUNT,\n        phasePercent,\n        totalEntities,\n        completedEntities,\n        totalParents: 0,\n        completedParents: 0,\n        totalBytes,\n        bytesUploaded,\n        ...progress,\n      } as UploadProgress);\n    }\n  };\n\n  try {\n    // ─────────────────────────────────────────────────────────────────────────\n    // SETUP: Resolve or create collection\n    // ─────────────────────────────────────────────────────────────────────────\n    let collectionId: string;\n    let collectionCid: string;\n    let collectionCreated = false;\n\n    if (target.createCollection) {\n      const collectionBody: CreateCollectionRequest = {\n        label: target.createCollection.label,\n        description: target.createCollection.description,\n        roles: target.createCollection.roles,\n        note,\n      };\n\n      const { data, error } = await client.api.POST('/collections', {\n        body: collectionBody,\n      });\n\n      if (error || !data) {\n        throw new Error(`Failed to create collection: ${JSON.stringify(error)}`);\n      }\n\n      collectionId = data.id;\n      collectionCid = data.cid;\n      collectionCreated = true;\n    } else if (target.collectionId) {\n      collectionId = target.collectionId;\n\n      const { data, error } = await client.api.GET('/collections/{id}', {\n        params: { path: { id: collectionId } },\n      });\n\n      if (error || !data) {\n        throw new Error(`Failed to fetch collection: ${JSON.stringify(error)}`);\n      }\n\n      collectionCid = data.cid;\n    } else {\n      throw new Error('Must provide either collectionId or createCollection in target');\n    }\n\n    // Determine the parent for root-level items\n    const rootParentId = target.parentId ?? collectionId;\n\n    // ─────────────────────────────────────────────────────────────────────────\n    // PHASE 1: Compute CIDs for all files\n    // ─────────────────────────────────────────────────────────────────────────\n    reportProgress({ phase: 'computing-cids', completedEntities: 0 });\n\n    const preparedFiles: PreparedFile[] = [];\n    let cidProgress = 0;\n\n    await parallelLimit(tree.files, Math.max(concurrency, 20), async (file) => {\n      try {\n        const data = await file.getData();\n        const cid = await computeCid(data);\n\n        preparedFiles.push({ ...file, cid });\n\n        cidProgress++;\n        reportProgress({\n          phase: 'computing-cids',\n          completedEntities: cidProgress,\n          currentItem: file.relativePath,\n        });\n      } catch (err) {\n        const errorMsg = err instanceof Error ? err.message : String(err);\n        if (continueOnError) {\n          errors.push({ path: file.relativePath, error: `CID computation failed: ${errorMsg}` });\n        } else {\n          throw new Error(`Failed to compute CID for ${file.relativePath}: ${errorMsg}`);\n        }\n      }\n    });\n\n    // ─────────────────────────────────────────────────────────────────────────\n    // PHASE 2: Create entities (folders by depth, then files)\n    // ─────────────────────────────────────────────────────────────────────────\n    reportProgress({ phase: 'creating', completedEntities: 0 });\n\n    // Group folders by depth\n    const foldersByDepth = groupFoldersByDepth(tree.folders);\n    const sortedDepths = [...foldersByDepth.keys()].sort((a, b) => a - b);\n\n    // Create folders depth by depth (parents before children)\n    for (const depth of sortedDepths) {\n      const foldersAtDepth = foldersByDepth.get(depth)!;\n\n      await Promise.all(\n        foldersAtDepth.map(async (folder) => {\n          try {\n            const parentPath = getParentPath(folder.relativePath);\n            const parentId = parentPath ? foldersByPath.get(parentPath)!.id : rootParentId;\n            const parentType = parentPath ? 'folder' : parentId === collectionId ? 'collection' : 'folder';\n\n            const folderBody: CreateFolderRequest = {\n              label: folder.name,\n              collection: collectionId,\n              note,\n              relationships: [{ predicate: 'in', peer: parentId, peer_type: parentType }],\n            };\n\n            const { data, error } = await client.api.POST('/folders', {\n              body: folderBody,\n            });\n\n            if (error || !data) {\n              throw new Error(JSON.stringify(error));\n            }\n\n            // Track folder\n            foldersByPath.set(folder.relativePath, { id: data.id, cid: data.cid });\n            createdFolders.push({\n              name: folder.name,\n              relativePath: folder.relativePath,\n              id: data.id,\n              entityCid: data.cid,\n            });\n\n            completedEntities++;\n            reportProgress({\n              phase: 'creating',\n              completedEntities,\n              currentItem: folder.relativePath,\n            });\n          } catch (err) {\n            const errorMsg = err instanceof Error ? err.message : String(err);\n            if (continueOnError) {\n              errors.push({ path: folder.relativePath, error: `Folder creation failed: ${errorMsg}` });\n              completedEntities++;\n            } else {\n              throw new Error(`Failed to create folder ${folder.relativePath}: ${errorMsg}`);\n            }\n          }\n        })\n      );\n    }\n\n    // Create file entities (metadata only, no content upload yet)\n    // Use simple concurrency limit for API calls\n    const FILE_CREATION_CONCURRENCY = 50;\n\n    await parallelLimit(preparedFiles, FILE_CREATION_CONCURRENCY, async (file) => {\n      try {\n        const parentPath = getParentPath(file.relativePath);\n        const parentId = parentPath ? foldersByPath.get(parentPath)!.id : rootParentId;\n        const parentType = parentPath ? 'folder' : parentId === collectionId ? 'collection' : 'folder';\n\n        // Create file entity with 'in' relationship\n        const fileBody: CreateFileRequest = {\n          key: file.cid,\n          filename: file.name,\n          content_type: file.mimeType,\n          size: file.size,\n          cid: file.cid,\n          collection: collectionId,\n          relationships: [{ predicate: 'in', peer: parentId, peer_type: parentType }],\n        };\n\n        const { data, error } = await client.api.POST('/files', {\n          body: fileBody,\n        });\n\n        if (error || !data) {\n          throw new Error(`Entity creation failed: ${JSON.stringify(error)}`);\n        }\n\n        // Track file with presigned URL for later upload\n        createdFiles.push({\n          ...file,\n          id: data.id,\n          entityCid: data.cid,\n          uploadUrl: data.upload_url,\n          uploadExpiresAt: data.upload_expires_at,\n        });\n\n        completedEntities++;\n        reportProgress({\n          phase: 'creating',\n          completedEntities,\n          currentItem: file.relativePath,\n        });\n      } catch (err) {\n        const errorMsg = err instanceof Error ? err.message : String(err);\n        if (continueOnError) {\n          errors.push({ path: file.relativePath, error: errorMsg });\n          completedEntities++;\n        } else {\n          throw new Error(`Failed to create file ${file.relativePath}: ${errorMsg}`);\n        }\n      }\n    });\n\n    // ─────────────────────────────────────────────────────────────────────────\n    // PHASE 3: Backlink - Update each parent with 'contains' relationships\n    // ─────────────────────────────────────────────────────────────────────────\n\n    // Build parent -> children map\n    const childrenByParent = new Map<string, Array<{ id: string; type: 'file' | 'folder' }>>();\n\n    // Add folders as children of their parents\n    for (const folder of createdFolders) {\n      const parentPath = getParentPath(folder.relativePath);\n      const parentId = parentPath ? foldersByPath.get(parentPath)!.id : rootParentId;\n\n      if (!childrenByParent.has(parentId)) childrenByParent.set(parentId, []);\n      childrenByParent.get(parentId)!.push({ id: folder.id, type: 'folder' });\n    }\n\n    // Add files as children of their parents\n    for (const file of createdFiles) {\n      const parentPath = getParentPath(file.relativePath);\n      const parentId = parentPath ? foldersByPath.get(parentPath)!.id : rootParentId;\n\n      if (!childrenByParent.has(parentId)) childrenByParent.set(parentId, []);\n      childrenByParent.get(parentId)!.push({ id: file.id, type: 'file' });\n    }\n\n    const totalParents = childrenByParent.size;\n    let completedParents = 0;\n\n    reportProgress({ phase: 'backlinking', totalParents, completedParents: 0 });\n\n    // Update all parents in parallel - each parent gets one PUT with all its children\n    const parentEntries = [...childrenByParent.entries()];\n\n    await parallelLimit(parentEntries, concurrency, async ([parentId, children]) => {\n      try {\n        const isCollection = parentId === collectionId;\n\n        // Build relationships_add array with all children\n        const relationshipsAdd = children.map((child) => ({\n          predicate: 'contains' as const,\n          peer: child.id,\n          peer_type: child.type,\n        }));\n\n        if (isCollection) {\n          // Get current collection CID for CAS\n          const { data: collData, error: getError } = await client.api.GET('/collections/{id}', {\n            params: { path: { id: parentId } },\n          });\n          if (getError || !collData) {\n            throw new Error(`Failed to fetch collection: ${JSON.stringify(getError)}`);\n          }\n\n          // Update collection with relationships_add\n          const updateBody: UpdateCollectionRequest = {\n            expect_tip: collData.cid,\n            relationships_add: relationshipsAdd,\n            note: note ? `${note} (backlink)` : 'Upload backlink',\n          };\n\n          const { error } = await client.api.PUT('/collections/{id}', {\n            params: { path: { id: parentId } },\n            body: updateBody,\n          });\n\n          if (error) {\n            throw new Error(JSON.stringify(error));\n          }\n        } else {\n          // Get current folder CID for CAS\n          const { data: folderData, error: getError } = await client.api.GET('/folders/{id}', {\n            params: { path: { id: parentId } },\n          });\n          if (getError || !folderData) {\n            throw new Error(`Failed to fetch folder: ${JSON.stringify(getError)}`);\n          }\n\n          // Update folder with relationships_add\n          const updateBody: UpdateFolderRequest = {\n            expect_tip: folderData.cid,\n            relationships_add: relationshipsAdd,\n            note: note ? `${note} (backlink)` : 'Upload backlink',\n          };\n\n          const { error } = await client.api.PUT('/folders/{id}', {\n            params: { path: { id: parentId } },\n            body: updateBody,\n          });\n\n          if (error) {\n            throw new Error(JSON.stringify(error));\n          }\n        }\n\n        completedParents++;\n        reportProgress({\n          phase: 'backlinking',\n          totalParents,\n          completedParents,\n          currentItem: `parent:${parentId}`,\n        });\n      } catch (err) {\n        const errorMsg = err instanceof Error ? err.message : String(err);\n        if (continueOnError) {\n          errors.push({ path: `parent:${parentId}`, error: `Backlink failed: ${errorMsg}` });\n          completedParents++;\n        } else {\n          throw new Error(`Failed to backlink parent ${parentId}: ${errorMsg}`);\n        }\n      }\n    });\n\n    // ─────────────────────────────────────────────────────────────────────────\n    // PHASE 4: Upload file content to S3\n    // Tree is now browsable! Users can explore while content uploads.\n    // ─────────────────────────────────────────────────────────────────────────\n    reportProgress({ phase: 'uploading', bytesUploaded: 0 });\n\n    // Use byte-based pool to maintain ~200MB in flight\n    const pool = new BytePool();\n\n    await Promise.all(\n      createdFiles.map(async (file) => {\n        await pool.run(file.size, async () => {\n          try {\n            // Get file data\n            const fileData = await file.getData();\n\n            let body: Blob;\n            if (fileData instanceof Blob) {\n              body = fileData;\n            } else if (fileData instanceof Uint8Array) {\n              const arrayBuffer = new ArrayBuffer(fileData.byteLength);\n              new Uint8Array(arrayBuffer).set(fileData);\n              body = new Blob([arrayBuffer], { type: file.mimeType });\n            } else {\n              body = new Blob([fileData], { type: file.mimeType });\n            }\n\n            // Upload to presigned URL\n            const uploadResponse = await fetch(file.uploadUrl, {\n              method: 'PUT',\n              body,\n              headers: { 'Content-Type': file.mimeType },\n            });\n\n            if (!uploadResponse.ok) {\n              throw new Error(`S3 upload failed with status ${uploadResponse.status}`);\n            }\n\n            // Confirm upload completed - sets uploaded: true on entity\n            // Retry on CAS conflict (entity may have been updated during upload)\n            let confirmTip = file.entityCid;\n            let confirmAttempts = 0;\n            const MAX_CONFIRM_ATTEMPTS = 3;\n\n            while (confirmAttempts < MAX_CONFIRM_ATTEMPTS) {\n              confirmAttempts++;\n\n              const { error: confirmError } = await client.api.POST('/files/{id}/confirm-upload', {\n                params: { path: { id: file.id } },\n                body: {\n                  expect_tip: confirmTip,\n                  note: note ? `${note} (confirmed)` : 'Upload confirmed',\n                },\n              });\n\n              if (!confirmError) {\n                break; // Success\n              }\n\n              // Check for CAS conflict (409)\n              const errorStr = JSON.stringify(confirmError);\n              if (errorStr.includes('409') || errorStr.includes('CAS') || errorStr.includes('conflict')) {\n                // Fetch current file to get updated CID\n                const { data: currentFile, error: fetchError } = await client.api.GET('/files/{id}', {\n                  params: { path: { id: file.id } },\n                });\n\n                if (fetchError || !currentFile) {\n                  throw new Error(`Failed to fetch file for confirm retry: ${JSON.stringify(fetchError)}`);\n                }\n\n                confirmTip = currentFile.cid;\n                // Loop will retry with new tip\n              } else {\n                // Non-CAS error - throw\n                throw new Error(`Confirm upload failed: ${errorStr}`);\n              }\n            }\n\n            if (confirmAttempts >= MAX_CONFIRM_ATTEMPTS) {\n              throw new Error(`Confirm upload failed after ${MAX_CONFIRM_ATTEMPTS} CAS retries`);\n            }\n\n            bytesUploaded += file.size;\n            reportProgress({\n              phase: 'uploading',\n              bytesUploaded,\n              currentItem: file.relativePath,\n            });\n          } catch (err) {\n            const errorMsg = err instanceof Error ? err.message : String(err);\n            if (continueOnError) {\n              errors.push({ path: file.relativePath, error: `Upload failed: ${errorMsg}` });\n            } else {\n              throw new Error(`Failed to upload ${file.relativePath}: ${errorMsg}`);\n            }\n          }\n        });\n      })\n    );\n\n    // ─────────────────────────────────────────────────────────────────────────\n    // Complete!\n    // ─────────────────────────────────────────────────────────────────────────\n    reportProgress({ phase: 'complete', totalParents, completedParents, bytesUploaded });\n\n    const resultFolders: CreatedEntity[] = createdFolders.map((f) => ({\n      id: f.id,\n      cid: f.entityCid,\n      type: 'folder' as const,\n      relativePath: f.relativePath,\n    }));\n\n    const resultFiles: CreatedEntity[] = createdFiles.map((f) => ({\n      id: f.id,\n      cid: f.entityCid,\n      type: 'file' as const,\n      relativePath: f.relativePath,\n    }));\n\n    return {\n      success: errors.length === 0,\n      collection: {\n        id: collectionId,\n        cid: collectionCid,\n        created: collectionCreated,\n      },\n      folders: resultFolders,\n      files: resultFiles,\n      errors,\n    };\n  } catch (err) {\n    const errorMsg = err instanceof Error ? err.message : String(err);\n\n    reportProgress({\n      phase: 'error',\n      error: errorMsg,\n    });\n\n    return {\n      success: false,\n      collection: {\n        id: target.collectionId ?? '',\n        cid: '',\n        created: false,\n      },\n      folders: createdFolders.map((f) => ({\n        id: f.id,\n        cid: f.entityCid,\n        type: 'folder' as const,\n        relativePath: f.relativePath,\n      })),\n      files: createdFiles.map((f) => ({\n        id: f.id,\n        cid: f.entityCid,\n        type: 'file' as const,\n        relativePath: f.relativePath,\n      })),\n      errors: [...errors, { path: '', error: errorMsg }],\n    };\n  }\n}\n","/**\n * Platform-specific Scanners\n *\n * Helpers to build UploadTree from different input sources.\n * These are optional utilities - users can also build UploadTree manually.\n */\n\n/// <reference lib=\"dom\" />\n\nimport type { UploadTree, UploadFile, UploadFolder } from './types.js';\n\n/**\n * Detect MIME type from filename.\n * Falls back to 'application/octet-stream' if unknown.\n */\nexport function getMimeType(filename: string): string {\n  const ext = filename.toLowerCase().split('.').pop() || '';\n\n  const mimeTypes: Record<string, string> = {\n    // Images\n    jpg: 'image/jpeg',\n    jpeg: 'image/jpeg',\n    png: 'image/png',\n    gif: 'image/gif',\n    webp: 'image/webp',\n    svg: 'image/svg+xml',\n    ico: 'image/x-icon',\n    bmp: 'image/bmp',\n    tiff: 'image/tiff',\n    tif: 'image/tiff',\n\n    // Documents\n    pdf: 'application/pdf',\n    doc: 'application/msword',\n    docx: 'application/vnd.openxmlformats-officedocument.wordprocessingml.document',\n    xls: 'application/vnd.ms-excel',\n    xlsx: 'application/vnd.openxmlformats-officedocument.spreadsheetml.sheet',\n    ppt: 'application/vnd.ms-powerpoint',\n    pptx: 'application/vnd.openxmlformats-officedocument.presentationml.presentation',\n    odt: 'application/vnd.oasis.opendocument.text',\n    ods: 'application/vnd.oasis.opendocument.spreadsheet',\n    odp: 'application/vnd.oasis.opendocument.presentation',\n\n    // Text\n    txt: 'text/plain',\n    md: 'text/markdown',\n    csv: 'text/csv',\n    html: 'text/html',\n    htm: 'text/html',\n    css: 'text/css',\n    xml: 'text/xml',\n    rtf: 'application/rtf',\n\n    // Code\n    js: 'text/javascript',\n    mjs: 'text/javascript',\n    ts: 'text/typescript',\n    jsx: 'text/javascript',\n    tsx: 'text/typescript',\n    json: 'application/json',\n    yaml: 'text/yaml',\n    yml: 'text/yaml',\n\n    // Archives\n    zip: 'application/zip',\n    tar: 'application/x-tar',\n    gz: 'application/gzip',\n    rar: 'application/vnd.rar',\n    '7z': 'application/x-7z-compressed',\n\n    // Audio\n    mp3: 'audio/mpeg',\n    wav: 'audio/wav',\n    ogg: 'audio/ogg',\n    m4a: 'audio/mp4',\n    flac: 'audio/flac',\n\n    // Video\n    mp4: 'video/mp4',\n    webm: 'video/webm',\n    avi: 'video/x-msvideo',\n    mov: 'video/quicktime',\n    mkv: 'video/x-matroska',\n\n    // Fonts\n    woff: 'font/woff',\n    woff2: 'font/woff2',\n    ttf: 'font/ttf',\n    otf: 'font/otf',\n\n    // Other\n    wasm: 'application/wasm',\n  };\n\n  return mimeTypes[ext] || 'application/octet-stream';\n}\n\n// ─────────────────────────────────────────────────────────────────────────────\n// Node.js Scanner\n// ─────────────────────────────────────────────────────────────────────────────\n\n/**\n * Scan a local directory and build an UploadTree.\n *\n * **Node.js only** - uses fs and path modules.\n *\n * @param directoryPath - Absolute path to directory\n * @param options - Scanner options\n * @returns UploadTree ready for upload\n *\n * @example\n * ```typescript\n * import { scanDirectory } from '@arke-institute/sdk/operations';\n *\n * const tree = await scanDirectory('/path/to/my-project');\n * const result = await uploadTree(client, tree, { target: { collectionId: '...' } });\n * ```\n */\nexport async function scanDirectory(\n  directoryPath: string,\n  options: {\n    /** Patterns to ignore (glob-style, e.g., 'node_modules', '.git') */\n    ignore?: string[];\n    /** Whether to include hidden files (default: false) */\n    includeHidden?: boolean;\n  } = {}\n): Promise<UploadTree> {\n  // Dynamic import for Node.js modules (allows SDK to be used in browser too)\n  const fs = await import('node:fs/promises');\n  const path = await import('node:path');\n\n  const { ignore = ['node_modules', '.git', '.DS_Store'], includeHidden = false } = options;\n\n  const files: UploadFile[] = [];\n  const folders: UploadFolder[] = [];\n\n  // Get the root folder name\n  const rootName = path.basename(directoryPath);\n\n  async function scanDir(dirPath: string, relativePath: string): Promise<void> {\n    const entries = await fs.readdir(dirPath, { withFileTypes: true });\n\n    for (const entry of entries) {\n      const name = entry.name;\n\n      // Skip hidden files unless explicitly included\n      if (!includeHidden && name.startsWith('.')) {\n        continue;\n      }\n\n      // Skip ignored patterns\n      if (ignore.some((pattern) => name === pattern || name.match(pattern))) {\n        continue;\n      }\n\n      const fullPath = path.join(dirPath, name);\n      const entryRelativePath = relativePath ? `${relativePath}/${name}` : name;\n\n      if (entry.isDirectory()) {\n        folders.push({\n          name,\n          relativePath: entryRelativePath,\n        });\n\n        // Recurse into subdirectory\n        await scanDir(fullPath, entryRelativePath);\n      } else if (entry.isFile()) {\n        const stat = await fs.stat(fullPath);\n\n        files.push({\n          name,\n          relativePath: entryRelativePath,\n          size: stat.size,\n          mimeType: getMimeType(name),\n          getData: async () => {\n            const buffer = await fs.readFile(fullPath);\n            // Convert Node.js Buffer to ArrayBuffer\n            return buffer.buffer.slice(buffer.byteOffset, buffer.byteOffset + buffer.byteLength);\n          },\n        });\n      }\n      // Skip symlinks, etc.\n    }\n  }\n\n  await scanDir(directoryPath, '');\n\n  // Sort folders by depth (important for creation order)\n  folders.sort((a, b) => a.relativePath.split('/').length - b.relativePath.split('/').length);\n\n  return { files, folders };\n}\n\n// ─────────────────────────────────────────────────────────────────────────────\n// Browser Scanners\n// ─────────────────────────────────────────────────────────────────────────────\n\n/**\n * Scan browser FileSystemEntry objects (from drag-drop or showDirectoryPicker).\n *\n * **Browser only** - uses FileSystemEntry API.\n *\n * @param entries - FileSystemEntry array from DataTransferItem.webkitGetAsEntry()\n * @returns UploadTree ready for upload\n *\n * @example\n * ```typescript\n * // In a drop handler\n * dropzone.ondrop = async (e) => {\n *   const entries = Array.from(e.dataTransfer.items)\n *     .map(item => item.webkitGetAsEntry())\n *     .filter(Boolean);\n *\n *   const tree = await scanFileSystemEntries(entries);\n *   const result = await uploadTree(client, tree, { target: { collectionId: '...' } });\n * };\n * ```\n */\nexport async function scanFileSystemEntries(\n  entries: FileSystemEntry[],\n  options: {\n    /** Patterns to ignore */\n    ignore?: string[];\n  } = {}\n): Promise<UploadTree> {\n  const { ignore = ['node_modules', '.git', '.DS_Store'] } = options;\n\n  const files: UploadFile[] = [];\n  const folders: UploadFolder[] = [];\n\n  async function processEntry(entry: FileSystemEntry, parentPath: string): Promise<void> {\n    const name = entry.name;\n\n    // Skip ignored patterns\n    if (ignore.some((pattern) => name === pattern)) {\n      return;\n    }\n\n    const relativePath = parentPath ? `${parentPath}/${name}` : name;\n\n    if (entry.isFile) {\n      const fileEntry = entry as FileSystemFileEntry;\n\n      // Get File object from FileSystemFileEntry\n      const file = await new Promise<File>((resolve, reject) => {\n        fileEntry.file(resolve, reject);\n      });\n\n      files.push({\n        name,\n        relativePath,\n        size: file.size,\n        mimeType: file.type || getMimeType(name),\n        getData: async () => file.arrayBuffer(),\n      });\n    } else if (entry.isDirectory) {\n      const dirEntry = entry as FileSystemDirectoryEntry;\n\n      folders.push({\n        name,\n        relativePath,\n      });\n\n      // Read directory contents\n      const reader = dirEntry.createReader();\n      const childEntries = await new Promise<FileSystemEntry[]>((resolve, reject) => {\n        const allEntries: FileSystemEntry[] = [];\n\n        function readEntries() {\n          reader.readEntries((entries) => {\n            if (entries.length === 0) {\n              resolve(allEntries);\n            } else {\n              allEntries.push(...entries);\n              readEntries(); // Continue reading (readEntries returns max 100 at a time)\n            }\n          }, reject);\n        }\n\n        readEntries();\n      });\n\n      // Process children\n      for (const childEntry of childEntries) {\n        await processEntry(childEntry, relativePath);\n      }\n    }\n  }\n\n  // Process all root entries\n  for (const entry of entries) {\n    if (entry) {\n      await processEntry(entry, '');\n    }\n  }\n\n  // Sort folders by depth\n  folders.sort((a, b) => a.relativePath.split('/').length - b.relativePath.split('/').length);\n\n  return { files, folders };\n}\n\n/**\n * Build UploadTree from a FileList (from <input type=\"file\"> with webkitdirectory).\n *\n * **Browser only** - uses File API.\n *\n * @param fileList - FileList from input element\n * @returns UploadTree ready for upload\n *\n * @example\n * ```typescript\n * <input type=\"file\" webkitdirectory multiple onChange={async (e) => {\n *   const tree = await scanFileList(e.target.files);\n *   const result = await uploadTree(client, tree, { target: { collectionId: '...' } });\n * }} />\n * ```\n */\nexport async function scanFileList(\n  fileList: FileList,\n  options: {\n    /** Patterns to ignore */\n    ignore?: string[];\n  } = {}\n): Promise<UploadTree> {\n  const { ignore = ['node_modules', '.git', '.DS_Store'] } = options;\n\n  const files: UploadFile[] = [];\n  const folderPaths = new Set<string>();\n\n  for (let i = 0; i < fileList.length; i++) {\n    const file = fileList[i];\n    if (!file) continue;\n\n    // webkitRelativePath gives us the path including the root folder\n    const relativePath = file.webkitRelativePath || file.name;\n    const name = file.name;\n\n    // Skip ignored patterns (check each path segment)\n    const pathSegments = relativePath.split('/');\n    if (pathSegments.some((segment: string) => ignore.includes(segment))) {\n      continue;\n    }\n\n    // Extract folder paths\n    const pathParts = relativePath.split('/');\n    for (let j = 1; j < pathParts.length; j++) {\n      const folderPath = pathParts.slice(0, j).join('/');\n      folderPaths.add(folderPath);\n    }\n\n    // Capture file reference for closure\n    const fileRef = file;\n    files.push({\n      name,\n      relativePath,\n      size: fileRef.size,\n      mimeType: fileRef.type || getMimeType(name),\n      getData: async () => fileRef.arrayBuffer(),\n    });\n  }\n\n  // Convert folder paths to UploadFolder objects\n  const folders: UploadFolder[] = Array.from(folderPaths)\n    .map((path) => ({\n      name: path.split('/').pop()!,\n      relativePath: path,\n    }))\n    .sort((a, b) => a.relativePath.split('/').length - b.relativePath.split('/').length);\n\n  return { files, folders };\n}\n\n// ─────────────────────────────────────────────────────────────────────────────\n// Utility: Build tree from flat file list\n// ─────────────────────────────────────────────────────────────────────────────\n\n/**\n * Build an UploadTree from a flat array of files with paths.\n *\n * Useful for programmatically constructing uploads without filesystem access.\n *\n * @param items - Array of file items with path, data, and optional metadata\n * @returns UploadTree ready for upload\n *\n * @example\n * ```typescript\n * const tree = buildUploadTree([\n *   { path: 'docs/readme.md', data: new Blob(['# Hello']) },\n *   { path: 'docs/images/logo.png', data: logoBlob },\n * ]);\n * ```\n */\nexport function buildUploadTree(\n  items: Array<{\n    /** Relative path (e.g., \"docs/readme.md\") */\n    path: string;\n    /** File data */\n    data: Blob | ArrayBuffer | Uint8Array;\n    /** MIME type (auto-detected if not provided) */\n    mimeType?: string;\n  }>\n): UploadTree {\n  const files: UploadFile[] = [];\n  const folderPaths = new Set<string>();\n\n  for (const item of items) {\n    const pathParts = item.path.split('/');\n    const name = pathParts.pop()!;\n\n    // Extract folder paths\n    for (let i = 1; i <= pathParts.length; i++) {\n      folderPaths.add(pathParts.slice(0, i).join('/'));\n    }\n\n    // Determine size\n    let size: number;\n    if (item.data instanceof Blob) {\n      size = item.data.size;\n    } else if (item.data instanceof ArrayBuffer) {\n      size = item.data.byteLength;\n    } else {\n      size = item.data.length;\n    }\n\n    files.push({\n      name,\n      relativePath: item.path,\n      size,\n      mimeType: item.mimeType || getMimeType(name),\n      getData: async () => item.data,\n    });\n  }\n\n  const folders: UploadFolder[] = Array.from(folderPaths)\n    .map((path) => ({\n      name: path.split('/').pop()!,\n      relativePath: path,\n    }))\n    .sort((a, b) => a.relativePath.split('/').length - b.relativePath.split('/').length);\n\n  return { files, folders };\n}\n","/**\n * Folder Operations (Legacy)\n *\n * @deprecated Use the new upload module instead:\n * ```typescript\n * import { uploadTree, scanDirectory } from '@arke-institute/sdk/operations';\n *\n * const tree = await scanDirectory('/path/to/folder');\n * const result = await uploadTree(client, tree, {\n *   target: { collectionId: '...' },\n * });\n * ```\n */\n\nimport type { ArkeClient } from '../client/ArkeClient.js';\nimport { uploadTree, scanDirectory, type UploadResult } from './upload/index.js';\n\n/**\n * @deprecated Use UploadProgress from upload module\n */\nexport interface UploadProgress {\n  phase: 'scanning' | 'creating-folders' | 'uploading-files' | 'linking' | 'complete';\n  totalFiles: number;\n  completedFiles: number;\n  totalFolders: number;\n  completedFolders: number;\n  currentFile?: string;\n}\n\n/**\n * @deprecated Use UploadOptions from upload module\n */\nexport interface UploadDirectoryOptions {\n  /** Collection to upload into */\n  collectionId: string;\n  /** Parent folder ID (optional - creates at root if not provided) */\n  parentFolderId?: string;\n  /** Progress callback */\n  onProgress?: (progress: UploadProgress) => void;\n  /** Max concurrent uploads */\n  concurrency?: number;\n}\n\n/**\n * @deprecated Use UploadResult from upload module\n */\nexport interface UploadDirectoryResult {\n  /** Root folder entity */\n  rootFolder: unknown;\n  /** All created folder entities */\n  folders: unknown[];\n  /** All created file entities */\n  files: unknown[];\n}\n\n/**\n * Folder operations helper\n *\n * @deprecated Use uploadTree and scanDirectory functions instead:\n * ```typescript\n * import { uploadTree, scanDirectory } from '@arke-institute/sdk/operations';\n *\n * const tree = await scanDirectory('/path/to/folder');\n * const result = await uploadTree(client, tree, {\n *   target: { collectionId: '...' },\n *   onProgress: (p) => console.log(`${p.completedFiles}/${p.totalFiles} files`),\n * });\n * ```\n */\nexport class FolderOperations {\n  constructor(private client: ArkeClient) {}\n\n  /**\n   * Upload a local directory to Arke\n   *\n   * @deprecated Use uploadTree and scanDirectory instead\n   */\n  async uploadDirectory(\n    localPath: string,\n    options: UploadDirectoryOptions\n  ): Promise<UploadDirectoryResult> {\n    // Use the new implementation\n    const tree = await scanDirectory(localPath);\n\n    const result: UploadResult = await uploadTree(this.client, tree, {\n      target: {\n        collectionId: options.collectionId,\n        parentId: options.parentFolderId,\n      },\n      concurrency: options.concurrency,\n      onProgress: options.onProgress\n        ? 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'complete'\n                        : 'scanning',\n              totalFiles: p.totalEntities,\n              completedFiles: p.completedEntities,\n              totalFolders: p.totalParents,\n              completedFolders: p.completedParents,\n              currentFile: p.currentItem,\n            });\n          }\n        : undefined,\n    });\n\n    return {\n      rootFolder: result.folders[0] || null,\n      folders: result.folders,\n      files: result.files,\n    };\n  }\n}\n","/**\n * Batch Operations\n *\n * High-level operations for bulk entity and relationship management.\n *\n * TODO: Implement batch operations\n * - createEntities: Create multiple entities in parallel\n * - updateEntities: Update multiple entities in parallel\n * - createRelationships: Create multiple relationships in parallel\n */\n\nimport type { ArkeClient } from '../client/ArkeClient.js';\n\nexport interface BatchCreateOptions {\n  /** Max concurrent operations */\n  concurrency?: number;\n  /** Continue on individual failures */\n  continueOnError?: boolean;\n  /** Progress callback */\n  onProgress?: (completed: number, total: number) => void;\n}\n\nexport interface BatchResult<T> {\n  /** Successfully completed operations */\n  succeeded: T[];\n  /** Failed operations with errors */\n  failed: Array<{ input: unknown; error: Error }>;\n}\n\n/**\n * Batch operations helper\n *\n * @example\n * ```typescript\n * const batch = new BatchOperations(arkeClient);\n * const result = await batch.createEntities([\n *   { type: 'document', properties: { title: 'Doc 1' } },\n *   { type: 'document', properties: { title: 'Doc 2' } },\n * ], { concurrency: 5 });\n * ```\n */\nexport class BatchOperations {\n  constructor(private client: ArkeClient) {}\n\n  /**\n   * Create multiple entities in parallel\n   *\n   * TODO: Implement this method\n   */\n  async createEntities(\n    _entities: Array<{\n      collectionId: string;\n      type: string;\n      properties?: Record<string, unknown>;\n    }>,\n    _options?: BatchCreateOptions\n  ): Promise<BatchResult<unknown>> {\n    throw new Error('BatchOperations.createEntities is not yet implemented');\n  }\n\n  /**\n   * Create multiple relationships in parallel\n   *\n   * TODO: Implement this method\n   */\n  async createRelationships(\n    _relationships: Array<{\n      sourceId: string;\n      targetId: string;\n      predicate: string;\n      bidirectional?: boolean;\n      properties?: Record<string, unknown>;\n    }>,\n    _options?: BatchCreateOptions\n  ): Promise<BatchResult<unknown>> {\n    throw new Error('BatchOperations.createRelationships is not yet implemented');\n  }\n}\n","/**\n * Crypto Operations\n *\n * Cryptographic utilities for agents and content addressing.\n *\n * TODO: Implement crypto operations\n * - generateKeyPair: Generate Ed25519 key pair for agent authentication\n * - signPayload: Sign a payload with agent private key\n * - computeCID: Compute IPFS CID for content\n */\n\n/**\n * Ed25519 key pair for agent authentication\n */\nexport interface KeyPair {\n  /** Public key in base64 */\n  publicKey: string;\n  /** Private key in base64 (keep secret!) */\n  privateKey: string;\n}\n\n/**\n * Signed payload with signature\n */\nexport interface SignedPayload {\n  /** Original payload */\n  payload: string;\n  /** Ed25519 signature in base64 */\n  signature: string;\n  /** Timestamp of signature */\n  timestamp: number;\n}\n\n/**\n * Crypto operations helper\n *\n * @example\n * ```typescript\n * // Generate key pair for a new agent\n * const { publicKey, privateKey } = await CryptoOperations.generateKeyPair();\n *\n * // Sign a payload\n * const signed = await CryptoOperations.signPayload(privateKey, payload);\n * ```\n */\nexport class CryptoOperations {\n  /**\n   * Generate an Ed25519 key pair for agent authentication\n   *\n   * TODO: Implement using Node.js crypto or Web Crypto API\n   */\n  static async generateKeyPair(): Promise<KeyPair> {\n    throw new Error('CryptoOperations.generateKeyPair is not yet implemented');\n  }\n\n  /**\n   * Sign a payload with an Ed25519 private key\n   *\n   * TODO: Implement signature generation\n   */\n  static async signPayload(_privateKey: string, _payload: string): Promise<SignedPayload> {\n    throw new Error('CryptoOperations.signPayload is not yet implemented');\n  }\n\n  /**\n   * Verify an Ed25519 signature\n   *\n   * TODO: Implement signature verification\n   */\n  static async verifySignature(\n    _publicKey: string,\n    _payload: string,\n    _signature: string\n  ): Promise<boolean> {\n    throw new Error('CryptoOperations.verifySignature is not yet implemented');\n  }\n\n  /**\n   * Compute IPFS CID for content\n   *\n   * TODO: Implement using multiformats library\n   */\n  static async computeCID(_content: Uint8Array): Promise<string> {\n    throw new Error('CryptoOperations.computeCID is not yet implemented');\n  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This keeps the pipeline full.\n *\n * - Small files: Many run in parallel (up to ~200MB worth)\n * - Large files: Fewer run in parallel\n * - Single file > 200MB: Runs alone (allowed when pool is empty)\n */\nclass BytePool {\n  private bytesInFlight = 0;\n  private waitQueue: Array<() => void> = [];\n\n  constructor(private targetBytes: number = TARGET_BYTES_IN_FLIGHT) {}\n\n  async run<T>(size: number, fn: () => Promise<T>): Promise<T> {\n    // Wait until we have room\n    // Exception: if pool is empty, always allow (handles files > targetBytes)\n    while (this.bytesInFlight > 0 && this.bytesInFlight + size > this.targetBytes) {\n      await new Promise<void>((resolve) => this.waitQueue.push(resolve));\n    }\n\n    this.bytesInFlight += size;\n    try {\n      return await fn();\n    } finally {\n      this.bytesInFlight -= size;\n      // Wake up next waiting task\n      const next = this.waitQueue.shift();\n      if (next) next();\n    }\n  }\n}\n\n// =============================================================================\n// Helper Functions\n// =============================================================================\n\n/**\n * Parse folder path to get parent path.\n * e.g., \"docs/images/photos\" -> \"docs/images\"\n */\nfunction getParentPath(relativePath: string): string | null {\n  const lastSlash = relativePath.lastIndexOf('/');\n  if (lastSlash === -1) return null;\n  return relativePath.slice(0, lastSlash);\n}\n\n/**\n * Group folders by depth level.\n */\nfunction groupFoldersByDepth(folders: UploadFolder[]): Map<number, UploadFolder[]> {\n  const byDepth = new Map<number, UploadFolder[]>();\n\n  for (const folder of folders) {\n    const depth = folder.relativePath.split('/').length - 1;\n    if (!byDepth.has(depth)) byDepth.set(depth, []);\n    byDepth.get(depth)!.push(folder);\n  }\n\n  return byDepth;\n}\n\n// =============================================================================\n// Main Upload Function\n// =============================================================================\n\n/**\n * Main upload function.\n * Orchestrates the entire upload process with optimized relationship strategy.\n */\nexport async function uploadTree(\n  client: ArkeClient,\n  tree: UploadTree,\n  options: UploadOptions\n): Promise<UploadResult> {\n  const { target, onProgress, concurrency = 10, continueOnError = false, note } = options;\n\n  const errors: Array<{ path: string; error: string }> = [];\n  const createdFolders: CreatedFolder[] = [];\n  const createdFiles: CreatedFile[] = [];\n\n  // Maps for tracking\n  const foldersByPath = new Map<string, { id: string; cid: string }>();\n\n  // Calculate totals\n  const totalEntities = tree.files.length + tree.folders.length;\n  const totalBytes = tree.files.reduce((sum, f) => sum + f.size, 0);\n  let completedEntities = 0;\n  let bytesUploaded = 0;\n\n  // Helper to report progress\n  const reportProgress = (progress: Partial<UploadProgress>) => {\n    if (onProgress) {\n      const phase = progress.phase || 'creating';\n      const phaseIndex = PHASE_INDEX[phase] ?? -1;\n\n      // Calculate phase percent based on current phase\n      let phasePercent = 0;\n      if (phase === 'creating') {\n        // Creating phase: progress is based on entities created\n        const done = progress.completedEntities ?? completedEntities;\n        phasePercent = totalEntities > 0 ? Math.round((done / totalEntities) * 100) : 100;\n      } else if (phase === 'backlinking') {\n        // Backlinking phase: progress is based on parents updated\n        const done = progress.completedParents ?? 0;\n        const total = progress.totalParents ?? 0;\n        phasePercent = total > 0 ? Math.round((done / total) * 100) : 100;\n      } else if (phase === 'uploading') {\n        // Uploading phase: progress is based on bytes uploaded\n        const done = progress.bytesUploaded ?? bytesUploaded;\n        phasePercent = totalBytes > 0 ? Math.round((done / totalBytes) * 100) : 100;\n      } else if (phase === 'complete') {\n        phasePercent = 100;\n      }\n\n      onProgress({\n        phase,\n        phaseIndex,\n        phaseCount: PHASE_COUNT,\n        phasePercent,\n        totalEntities,\n        completedEntities,\n        totalParents: 0,\n        completedParents: 0,\n        totalBytes,\n        bytesUploaded,\n        ...progress,\n      } as UploadProgress);\n    }\n  };\n\n  try {\n    // ─────────────────────────────────────────────────────────────────────────\n    // SETUP: Resolve or create collection\n    // ─────────────────────────────────────────────────────────────────────────\n    let collectionId: string;\n    let collectionCid: string;\n    let collectionCreated = false;\n\n    if (target.createCollection) {\n      const collectionBody: CreateCollectionRequest = {\n        label: target.createCollection.label,\n        description: target.createCollection.description,\n        roles: target.createCollection.roles,\n        note,\n      };\n\n      const { data, error } = await client.api.POST('/collections', {\n        body: collectionBody,\n      });\n\n      if (error || !data) {\n        throw new Error(`Failed to create collection: ${JSON.stringify(error)}`);\n      }\n\n      collectionId = data.id;\n      collectionCid = data.cid;\n      collectionCreated = true;\n    } else if (target.collectionId) {\n      collectionId = target.collectionId;\n\n      const { data, error } = await client.api.GET('/collections/{id}', {\n        params: { path: { id: collectionId } },\n      });\n\n      if (error || !data) {\n        throw new Error(`Failed to fetch collection: ${JSON.stringify(error)}`);\n      }\n\n      collectionCid = data.cid;\n    } else {\n      throw new Error('Must provide either collectionId or createCollection in target');\n    }\n\n    // Determine the parent for root-level items\n    const rootParentId = target.parentId ?? collectionId;\n\n    // ─────────────────────────────────────────────────────────────────────────\n    // PHASE 1: Create entities (folders by depth, then files)\n    // ─────────────────────────────────────────────────────────────────────────\n    reportProgress({ phase: 'creating', completedEntities: 0 });\n\n    // Group folders by depth\n    const foldersByDepth = groupFoldersByDepth(tree.folders);\n    const sortedDepths = [...foldersByDepth.keys()].sort((a, b) => a - b);\n\n    // Create folders depth by depth (parents before children)\n    for (const depth of sortedDepths) {\n      const foldersAtDepth = foldersByDepth.get(depth)!;\n\n      await Promise.all(\n        foldersAtDepth.map(async (folder) => {\n          try {\n            const parentPath = getParentPath(folder.relativePath);\n            const parentId = parentPath ? foldersByPath.get(parentPath)!.id : rootParentId;\n            const parentType = parentPath ? 'folder' : parentId === collectionId ? 'collection' : 'folder';\n\n            const folderBody: CreateFolderRequest = {\n              label: folder.name,\n              collection: collectionId,\n              note,\n              relationships: [{ predicate: 'in', peer: parentId, peer_type: parentType }],\n            };\n\n            const { data, error } = await client.api.POST('/folders', {\n              body: folderBody,\n            });\n\n            if (error || !data) {\n              throw new Error(JSON.stringify(error));\n            }\n\n            // Track folder\n            foldersByPath.set(folder.relativePath, { id: data.id, cid: data.cid });\n            createdFolders.push({\n              name: folder.name,\n              relativePath: folder.relativePath,\n              id: data.id,\n              entityCid: data.cid,\n            });\n\n            completedEntities++;\n            reportProgress({\n              phase: 'creating',\n              completedEntities,\n              currentItem: folder.relativePath,\n            });\n          } catch (err) {\n            const errorMsg = err instanceof Error ? err.message : String(err);\n            if (continueOnError) {\n              errors.push({ path: folder.relativePath, error: `Folder creation failed: ${errorMsg}` });\n              completedEntities++;\n            } else {\n              throw new Error(`Failed to create folder ${folder.relativePath}: ${errorMsg}`);\n            }\n          }\n        })\n      );\n    }\n\n    // Create file entities (metadata only, no content upload yet)\n    // Use simple concurrency limit for API calls\n    const FILE_CREATION_CONCURRENCY = 50;\n\n    await parallelLimit(tree.files, FILE_CREATION_CONCURRENCY, async (file) => {\n      try {\n        const parentPath = getParentPath(file.relativePath);\n        const parentId = parentPath ? foldersByPath.get(parentPath)!.id : rootParentId;\n        const parentType = parentPath ? 'folder' : parentId === collectionId ? 'collection' : 'folder';\n\n        // Create file entity with 'in' relationship\n        // Server computes CID when content is uploaded\n        const fileBody: CreateFileRequest = {\n          key: crypto.randomUUID(), // Generate unique storage key\n          filename: file.name,\n          content_type: file.mimeType,\n          size: file.size,\n          collection: collectionId,\n          relationships: [{ predicate: 'in', peer: parentId, peer_type: parentType }],\n        };\n\n        const { data, error } = await client.api.POST('/files', {\n          body: fileBody,\n        });\n\n        if (error || !data) {\n          throw new Error(`Entity creation failed: ${JSON.stringify(error)}`);\n        }\n\n        // Track file for later upload\n        createdFiles.push({\n          ...file,\n          id: data.id,\n          entityCid: data.cid,\n        });\n\n        completedEntities++;\n        reportProgress({\n          phase: 'creating',\n          completedEntities,\n          currentItem: file.relativePath,\n        });\n      } catch (err) {\n        const errorMsg = err instanceof Error ? err.message : String(err);\n        if (continueOnError) {\n          errors.push({ path: file.relativePath, error: errorMsg });\n          completedEntities++;\n        } else {\n          throw new Error(`Failed to create file ${file.relativePath}: ${errorMsg}`);\n        }\n      }\n    });\n\n    // ─────────────────────────────────────────────────────────────────────────\n    // PHASE 2: Backlink - Update each parent with 'contains' relationships\n    // ─────────────────────────────────────────────────────────────────────────\n\n    // Build parent -> children map\n    const childrenByParent = new Map<string, Array<{ id: string; type: 'file' | 'folder' }>>();\n\n    // Add folders as children of their parents\n    for (const folder of createdFolders) {\n      const parentPath = getParentPath(folder.relativePath);\n      const parentId = parentPath ? foldersByPath.get(parentPath)!.id : rootParentId;\n\n      if (!childrenByParent.has(parentId)) childrenByParent.set(parentId, []);\n      childrenByParent.get(parentId)!.push({ id: folder.id, type: 'folder' });\n    }\n\n    // Add files as children of their parents\n    for (const file of createdFiles) {\n      const parentPath = getParentPath(file.relativePath);\n      const parentId = parentPath ? foldersByPath.get(parentPath)!.id : rootParentId;\n\n      if (!childrenByParent.has(parentId)) childrenByParent.set(parentId, []);\n      childrenByParent.get(parentId)!.push({ id: file.id, type: 'file' });\n    }\n\n    const totalParents = childrenByParent.size;\n    let completedParents = 0;\n\n    reportProgress({ phase: 'backlinking', totalParents, completedParents: 0 });\n\n    // Update all parents in parallel - each parent gets one PUT with all its children\n    const parentEntries = [...childrenByParent.entries()];\n\n    await parallelLimit(parentEntries, concurrency, async ([parentId, children]) => {\n      try {\n        const isCollection = parentId === collectionId;\n\n        // Build relationships_add array with all children\n        const relationshipsAdd = children.map((child) => ({\n          predicate: 'contains' as const,\n          peer: child.id,\n          peer_type: child.type,\n        }));\n\n        if (isCollection) {\n          // Get current collection CID for CAS\n          const { data: collData, error: getError } = await client.api.GET('/collections/{id}', {\n            params: { path: { id: parentId } },\n          });\n          if (getError || !collData) {\n            throw new Error(`Failed to fetch collection: ${JSON.stringify(getError)}`);\n          }\n\n          // Update collection with relationships_add\n          const updateBody: UpdateCollectionRequest = {\n            expect_tip: collData.cid,\n            relationships_add: relationshipsAdd,\n            note: note ? `${note} (backlink)` : 'Upload backlink',\n          };\n\n          const { error } = await client.api.PUT('/collections/{id}', {\n            params: { path: { id: parentId } },\n            body: updateBody,\n          });\n\n          if (error) {\n            throw new Error(JSON.stringify(error));\n          }\n        } else {\n          // Get current folder CID for CAS\n          const { data: folderData, error: getError } = await client.api.GET('/folders/{id}', {\n            params: { path: { id: parentId } },\n          });\n          if (getError || !folderData) {\n            throw new Error(`Failed to fetch folder: ${JSON.stringify(getError)}`);\n          }\n\n          // Update folder with relationships_add\n          const updateBody: UpdateFolderRequest = {\n            expect_tip: folderData.cid,\n            relationships_add: relationshipsAdd,\n            note: note ? `${note} (backlink)` : 'Upload backlink',\n          };\n\n          const { error } = await client.api.PUT('/folders/{id}', {\n            params: { path: { id: parentId } },\n            body: updateBody,\n          });\n\n          if (error) {\n            throw new Error(JSON.stringify(error));\n          }\n        }\n\n        completedParents++;\n        reportProgress({\n          phase: 'backlinking',\n          totalParents,\n          completedParents,\n          currentItem: `parent:${parentId}`,\n        });\n      } catch (err) {\n        const errorMsg = err instanceof Error ? err.message : String(err);\n        if (continueOnError) {\n          errors.push({ path: `parent:${parentId}`, error: `Backlink failed: ${errorMsg}` });\n          completedParents++;\n        } else {\n          throw new Error(`Failed to backlink parent ${parentId}: ${errorMsg}`);\n        }\n      }\n    });\n\n    // ─────────────────────────────────────────────────────────────────────────\n    // PHASE 3: Upload file content directly to API\n    // Tree is now browsable! Users can explore while content uploads.\n    // ─────────────────────────────────────────────────────────────────────────\n    reportProgress({ phase: 'uploading', bytesUploaded: 0 });\n\n    // Use byte-based pool to maintain ~200MB in flight\n    const pool = new BytePool();\n\n    await Promise.all(\n      createdFiles.map(async (file) => {\n        await pool.run(file.size, async () => {\n          try {\n            // Get file data\n            const fileData = await file.getData();\n\n            let body: Blob;\n            if (fileData instanceof Blob) {\n              body = fileData;\n            } else if (fileData instanceof Uint8Array) {\n              const arrayBuffer = new ArrayBuffer(fileData.byteLength);\n              new Uint8Array(arrayBuffer).set(fileData);\n              body = new Blob([arrayBuffer], { type: file.mimeType });\n            } else {\n              body = new Blob([fileData], { type: file.mimeType });\n            }\n\n            // Upload content directly to API endpoint\n            // The API streams to R2, computes CID, and updates the entity atomically\n            const { error: uploadError } = await client.api.POST('/files/{id}/content', {\n              params: { path: { id: file.id } },\n              body: body as unknown as Record<string, never>,\n              bodySerializer: (b: unknown) => b as BodyInit,\n              headers: { 'Content-Type': file.mimeType },\n            } as Parameters<typeof client.api.POST>[1]);\n\n            if (uploadError) {\n              throw new Error(`Upload failed: ${JSON.stringify(uploadError)}`);\n            }\n\n            bytesUploaded += file.size;\n            reportProgress({\n              phase: 'uploading',\n              bytesUploaded,\n              currentItem: file.relativePath,\n            });\n          } catch (err) {\n            const errorMsg = err instanceof Error ? err.message : String(err);\n            if (continueOnError) {\n              errors.push({ path: file.relativePath, error: `Upload failed: ${errorMsg}` });\n            } else {\n              throw new Error(`Failed to upload ${file.relativePath}: ${errorMsg}`);\n            }\n          }\n        });\n      })\n    );\n\n    // ─────────────────────────────────────────────────────────────────────────\n    // Complete!\n    // ─────────────────────────────────────────────────────────────────────────\n    reportProgress({ phase: 'complete', totalParents, completedParents, bytesUploaded });\n\n    const resultFolders: CreatedEntity[] = createdFolders.map((f) => ({\n      id: f.id,\n      cid: f.entityCid,\n      type: 'folder' as const,\n      relativePath: f.relativePath,\n    }));\n\n    const resultFiles: CreatedEntity[] = createdFiles.map((f) => ({\n      id: f.id,\n      cid: f.entityCid,\n      type: 'file' as const,\n      relativePath: f.relativePath,\n    }));\n\n    return {\n      success: errors.length === 0,\n      collection: {\n        id: collectionId,\n        cid: collectionCid,\n        created: collectionCreated,\n      },\n      folders: resultFolders,\n      files: resultFiles,\n      errors,\n    };\n  } catch (err) {\n    const errorMsg = err instanceof Error ? err.message : String(err);\n\n    reportProgress({\n      phase: 'error',\n      error: errorMsg,\n    });\n\n    return {\n      success: false,\n      collection: {\n        id: target.collectionId ?? '',\n        cid: '',\n        created: false,\n      },\n      folders: createdFolders.map((f) => ({\n        id: f.id,\n        cid: f.entityCid,\n        type: 'folder' as const,\n        relativePath: f.relativePath,\n      })),\n      files: createdFiles.map((f) => ({\n        id: f.id,\n        cid: f.entityCid,\n        type: 'file' as const,\n        relativePath: f.relativePath,\n      })),\n      errors: [...errors, { path: '', error: errorMsg }],\n    };\n  }\n}\n","/**\n * CID Computation Utility\n *\n * Computes IPFS CIDv1 (base32) for file content.\n * Uses raw codec (0x55) and SHA-256 hash.\n *\n * Note: This module is not used internally by the upload engine (the server\n * computes CIDs from uploaded content). It is exported for convenience in case\n * you want to verify entity CIDs, detect duplicates before upload, or perform\n * other content-addressed operations.\n */\n\nimport { CID } from 'multiformats/cid';\nimport { sha256 } from 'multiformats/hashes/sha2';\nimport * as raw from 'multiformats/codecs/raw';\n\n/**\n * Compute CIDv1 for binary content.\n * Returns base32 encoded string (bafk... prefix for raw codec).\n *\n * @param data - Binary content as ArrayBuffer, Uint8Array, or Blob\n * @returns CIDv1 string in base32 encoding\n *\n * @example\n * ```typescript\n * const cid = await computeCid(new TextEncoder().encode('hello world'));\n * // Returns: \"bafkreifzjut3te2nhyekklss27nh3k72ysco7y32koao5eei66wof36n5e\"\n * ```\n */\nexport async function computeCid(data: ArrayBuffer | Uint8Array | Blob): Promise<string> {\n  // Convert to Uint8Array\n  let bytes: Uint8Array;\n\n  if (data instanceof Blob) {\n    const buffer = await data.arrayBuffer();\n    bytes = new Uint8Array(buffer);\n  } else if (data instanceof ArrayBuffer) {\n    bytes = new Uint8Array(data);\n  } else {\n    bytes = data;\n  }\n\n  // Compute SHA-256 hash\n  const hash = await sha256.digest(bytes);\n\n  // Create CIDv1 with raw codec\n  const cid = CID.create(1, raw.code, hash);\n\n  // Return base32 encoded string\n  return cid.toString();\n}\n\n/**\n * Verify a CID matches the content.\n *\n * @param data - Binary content\n * @param expectedCid - CID to verify against\n * @returns true if CID matches\n */\nexport async function verifyCid(\n  data: ArrayBuffer | Uint8Array | Blob,\n  expectedCid: string\n): Promise<boolean> {\n  const computed = await computeCid(data);\n  return computed === expectedCid;\n}\n","/**\n * Platform-specific Scanners\n *\n * Helpers to build UploadTree from different input sources.\n * These are optional utilities - users can also build UploadTree manually.\n */\n\n/// <reference lib=\"dom\" />\n\nimport type { UploadTree, UploadFile, UploadFolder } from './types.js';\n\n/**\n * Detect MIME type from filename.\n * Falls back to 'application/octet-stream' if unknown.\n */\nexport function getMimeType(filename: string): string {\n  const ext = filename.toLowerCase().split('.').pop() || '';\n\n  const mimeTypes: Record<string, string> = {\n    // Images\n    jpg: 'image/jpeg',\n    jpeg: 'image/jpeg',\n    png: 'image/png',\n    gif: 'image/gif',\n    webp: 'image/webp',\n    svg: 'image/svg+xml',\n    ico: 'image/x-icon',\n    bmp: 'image/bmp',\n    tiff: 'image/tiff',\n    tif: 'image/tiff',\n\n    // Documents\n    pdf: 'application/pdf',\n    doc: 'application/msword',\n    docx: 'application/vnd.openxmlformats-officedocument.wordprocessingml.document',\n    xls: 'application/vnd.ms-excel',\n    xlsx: 'application/vnd.openxmlformats-officedocument.spreadsheetml.sheet',\n    ppt: 'application/vnd.ms-powerpoint',\n    pptx: 'application/vnd.openxmlformats-officedocument.presentationml.presentation',\n    odt: 'application/vnd.oasis.opendocument.text',\n    ods: 'application/vnd.oasis.opendocument.spreadsheet',\n    odp: 'application/vnd.oasis.opendocument.presentation',\n\n    // Text\n    txt: 'text/plain',\n    md: 'text/markdown',\n    csv: 'text/csv',\n    html: 'text/html',\n    htm: 'text/html',\n    css: 'text/css',\n    xml: 'text/xml',\n    rtf: 'application/rtf',\n\n    // Code\n    js: 'text/javascript',\n    mjs: 'text/javascript',\n    ts: 'text/typescript',\n    jsx: 'text/javascript',\n    tsx: 'text/typescript',\n    json: 'application/json',\n    yaml: 'text/yaml',\n    yml: 'text/yaml',\n\n    // Archives\n    zip: 'application/zip',\n    tar: 'application/x-tar',\n    gz: 'application/gzip',\n    rar: 'application/vnd.rar',\n    '7z': 'application/x-7z-compressed',\n\n    // Audio\n    mp3: 'audio/mpeg',\n    wav: 'audio/wav',\n    ogg: 'audio/ogg',\n    m4a: 'audio/mp4',\n    flac: 'audio/flac',\n\n    // Video\n    mp4: 'video/mp4',\n    webm: 'video/webm',\n    avi: 'video/x-msvideo',\n    mov: 'video/quicktime',\n    mkv: 'video/x-matroska',\n\n    // Fonts\n    woff: 'font/woff',\n    woff2: 'font/woff2',\n    ttf: 'font/ttf',\n    otf: 'font/otf',\n\n    // Other\n    wasm: 'application/wasm',\n  };\n\n  return mimeTypes[ext] || 'application/octet-stream';\n}\n\n// ─────────────────────────────────────────────────────────────────────────────\n// Node.js Scanner\n// ─────────────────────────────────────────────────────────────────────────────\n\n/**\n * Scan a local directory and build an UploadTree.\n *\n * **Node.js only** - uses fs and path modules.\n *\n * @param directoryPath - Absolute path to directory\n * @param options - Scanner options\n * @returns UploadTree ready for upload\n *\n * @example\n * ```typescript\n * import { scanDirectory } from '@arke-institute/sdk/operations';\n *\n * const tree = await scanDirectory('/path/to/my-project');\n * const result = await uploadTree(client, tree, { target: { collectionId: '...' } });\n * ```\n */\nexport async function scanDirectory(\n  directoryPath: string,\n  options: {\n    /** Patterns to ignore (glob-style, e.g., 'node_modules', '.git') */\n    ignore?: string[];\n    /** Whether to include hidden files (default: false) */\n    includeHidden?: boolean;\n  } = {}\n): Promise<UploadTree> {\n  // Dynamic import for Node.js modules (allows SDK to be used in browser too)\n  const fs = await import('node:fs/promises');\n  const path = await import('node:path');\n\n  const { ignore = ['node_modules', '.git', '.DS_Store'], includeHidden = false } = options;\n\n  const files: UploadFile[] = [];\n  const folders: UploadFolder[] = [];\n\n  // Get the root folder name\n  const rootName = path.basename(directoryPath);\n\n  async function scanDir(dirPath: string, relativePath: string): Promise<void> {\n    const entries = await fs.readdir(dirPath, { withFileTypes: true });\n\n    for (const entry of entries) {\n      const name = entry.name;\n\n      // Skip hidden files unless explicitly included\n      if (!includeHidden && name.startsWith('.')) {\n        continue;\n      }\n\n      // Skip ignored patterns\n      if (ignore.some((pattern) => name === pattern || name.match(pattern))) {\n        continue;\n      }\n\n      const fullPath = path.join(dirPath, name);\n      const entryRelativePath = relativePath ? `${relativePath}/${name}` : name;\n\n      if (entry.isDirectory()) {\n        folders.push({\n          name,\n          relativePath: entryRelativePath,\n        });\n\n        // Recurse into subdirectory\n        await scanDir(fullPath, entryRelativePath);\n      } else if (entry.isFile()) {\n        const stat = await fs.stat(fullPath);\n\n        files.push({\n          name,\n          relativePath: entryRelativePath,\n          size: stat.size,\n          mimeType: getMimeType(name),\n          getData: async () => {\n            const buffer = await fs.readFile(fullPath);\n            // Convert Node.js Buffer to ArrayBuffer\n            return buffer.buffer.slice(buffer.byteOffset, buffer.byteOffset + buffer.byteLength);\n          },\n        });\n      }\n      // Skip symlinks, etc.\n    }\n  }\n\n  await scanDir(directoryPath, '');\n\n  // Sort folders by depth (important for creation order)\n  folders.sort((a, b) => a.relativePath.split('/').length - b.relativePath.split('/').length);\n\n  return { files, folders };\n}\n\n// ─────────────────────────────────────────────────────────────────────────────\n// Browser Scanners\n// ─────────────────────────────────────────────────────────────────────────────\n\n/**\n * Scan browser FileSystemEntry objects (from drag-drop or showDirectoryPicker).\n *\n * **Browser only** - uses FileSystemEntry API.\n *\n * @param entries - FileSystemEntry array from DataTransferItem.webkitGetAsEntry()\n * @returns UploadTree ready for upload\n *\n * @example\n * ```typescript\n * // In a drop handler\n * dropzone.ondrop = async (e) => {\n *   const entries = Array.from(e.dataTransfer.items)\n *     .map(item => item.webkitGetAsEntry())\n *     .filter(Boolean);\n *\n *   const tree = await scanFileSystemEntries(entries);\n *   const result = await uploadTree(client, tree, { target: { collectionId: '...' } });\n * };\n * ```\n */\nexport async function scanFileSystemEntries(\n  entries: FileSystemEntry[],\n  options: {\n    /** Patterns to ignore */\n    ignore?: string[];\n  } = {}\n): Promise<UploadTree> {\n  const { ignore = ['node_modules', '.git', '.DS_Store'] } = options;\n\n  const files: UploadFile[] = [];\n  const folders: UploadFolder[] = [];\n\n  async function processEntry(entry: FileSystemEntry, parentPath: string): Promise<void> {\n    const name = entry.name;\n\n    // Skip ignored patterns\n    if (ignore.some((pattern) => name === pattern)) {\n      return;\n    }\n\n    const relativePath = parentPath ? `${parentPath}/${name}` : name;\n\n    if (entry.isFile) {\n      const fileEntry = entry as FileSystemFileEntry;\n\n      // Get File object from FileSystemFileEntry\n      const file = await new Promise<File>((resolve, reject) => {\n        fileEntry.file(resolve, reject);\n      });\n\n      files.push({\n        name,\n        relativePath,\n        size: file.size,\n        mimeType: file.type || getMimeType(name),\n        getData: async () => file.arrayBuffer(),\n      });\n    } else if (entry.isDirectory) {\n      const dirEntry = entry as FileSystemDirectoryEntry;\n\n      folders.push({\n        name,\n        relativePath,\n      });\n\n      // Read directory contents\n      const reader = dirEntry.createReader();\n      const childEntries = await new Promise<FileSystemEntry[]>((resolve, reject) => {\n        const allEntries: FileSystemEntry[] = [];\n\n        function readEntries() {\n          reader.readEntries((entries) => {\n            if (entries.length === 0) {\n              resolve(allEntries);\n            } else {\n              allEntries.push(...entries);\n              readEntries(); // Continue reading (readEntries returns max 100 at a time)\n            }\n          }, reject);\n        }\n\n        readEntries();\n      });\n\n      // Process children\n      for (const childEntry of childEntries) {\n        await processEntry(childEntry, relativePath);\n      }\n    }\n  }\n\n  // Process all root entries\n  for (const entry of entries) {\n    if (entry) {\n      await processEntry(entry, '');\n    }\n  }\n\n  // Sort folders by depth\n  folders.sort((a, b) => a.relativePath.split('/').length - b.relativePath.split('/').length);\n\n  return { files, folders };\n}\n\n/**\n * Build UploadTree from a FileList (from <input type=\"file\"> with webkitdirectory).\n *\n * **Browser only** - uses File API.\n *\n * @param fileList - FileList from input element\n * @returns UploadTree ready for upload\n *\n * @example\n * ```typescript\n * <input type=\"file\" webkitdirectory multiple onChange={async (e) => {\n *   const tree = await scanFileList(e.target.files);\n *   const result = await uploadTree(client, tree, { target: { collectionId: '...' } });\n * }} />\n * ```\n */\nexport async function scanFileList(\n  fileList: FileList,\n  options: {\n    /** Patterns to ignore */\n    ignore?: string[];\n  } = {}\n): Promise<UploadTree> {\n  const { ignore = ['node_modules', '.git', '.DS_Store'] } = options;\n\n  const files: UploadFile[] = [];\n  const folderPaths = new Set<string>();\n\n  for (let i = 0; i < fileList.length; i++) {\n    const file = fileList[i];\n    if (!file) continue;\n\n    // webkitRelativePath gives us the path including the root folder\n    const relativePath = file.webkitRelativePath || file.name;\n    const name = file.name;\n\n    // Skip ignored patterns (check each path segment)\n    const pathSegments = relativePath.split('/');\n    if (pathSegments.some((segment: string) => ignore.includes(segment))) {\n      continue;\n    }\n\n    // Extract folder paths\n    const pathParts = relativePath.split('/');\n    for (let j = 1; j < pathParts.length; j++) {\n      const folderPath = pathParts.slice(0, j).join('/');\n      folderPaths.add(folderPath);\n    }\n\n    // Capture file reference for closure\n    const fileRef = file;\n    files.push({\n      name,\n      relativePath,\n      size: fileRef.size,\n      mimeType: fileRef.type || getMimeType(name),\n      getData: async () => fileRef.arrayBuffer(),\n    });\n  }\n\n  // Convert folder paths to UploadFolder objects\n  const folders: UploadFolder[] = Array.from(folderPaths)\n    .map((path) => ({\n      name: path.split('/').pop()!,\n      relativePath: path,\n    }))\n    .sort((a, b) => a.relativePath.split('/').length - b.relativePath.split('/').length);\n\n  return { files, folders };\n}\n\n// ─────────────────────────────────────────────────────────────────────────────\n// Utility: Build tree from flat file list\n// ─────────────────────────────────────────────────────────────────────────────\n\n/**\n * Build an UploadTree from a flat array of files with paths.\n *\n * Useful for programmatically constructing uploads without filesystem access.\n *\n * @param items - Array of file items with path, data, and optional metadata\n * @returns UploadTree ready for upload\n *\n * @example\n * ```typescript\n * const tree = buildUploadTree([\n *   { path: 'docs/readme.md', data: new Blob(['# Hello']) },\n *   { path: 'docs/images/logo.png', data: logoBlob },\n * ]);\n * ```\n */\nexport function buildUploadTree(\n  items: Array<{\n    /** Relative path (e.g., \"docs/readme.md\") */\n    path: string;\n    /** File data */\n    data: Blob | ArrayBuffer | Uint8Array;\n    /** MIME type (auto-detected if not provided) */\n    mimeType?: string;\n  }>\n): UploadTree {\n  const files: UploadFile[] = [];\n  const folderPaths = new Set<string>();\n\n  for (const item of items) {\n    const pathParts = item.path.split('/');\n    const name = pathParts.pop()!;\n\n    // Extract folder paths\n    for (let i = 1; i <= pathParts.length; i++) {\n      folderPaths.add(pathParts.slice(0, i).join('/'));\n    }\n\n    // Determine size\n    let size: number;\n    if (item.data instanceof Blob) {\n      size = item.data.size;\n    } else if (item.data instanceof ArrayBuffer) {\n      size = item.data.byteLength;\n    } else {\n      size = item.data.length;\n    }\n\n    files.push({\n      name,\n      relativePath: item.path,\n      size,\n      mimeType: item.mimeType || getMimeType(name),\n      getData: async () => item.data,\n    });\n  }\n\n  const folders: UploadFolder[] = Array.from(folderPaths)\n    .map((path) => ({\n      name: path.split('/').pop()!,\n      relativePath: path,\n    }))\n    .sort((a, b) => a.relativePath.split('/').length - b.relativePath.split('/').length);\n\n  return { files, folders };\n}\n","/**\n * Folder Operations (Legacy)\n *\n * @deprecated Use the new upload module instead:\n * ```typescript\n * import { uploadTree, scanDirectory } from '@arke-institute/sdk/operations';\n *\n * const tree = await scanDirectory('/path/to/folder');\n * const result = await uploadTree(client, tree, {\n *   target: { collectionId: '...' },\n * });\n * ```\n */\n\nimport type { ArkeClient } from '../client/ArkeClient.js';\nimport { uploadTree, scanDirectory, type UploadResult } from './upload/index.js';\n\n/**\n * @deprecated Use UploadProgress from upload module\n */\nexport interface UploadProgress {\n  phase: 'scanning' | 'creating-folders' | 'uploading-files' | 'linking' | 'complete';\n  totalFiles: number;\n  completedFiles: number;\n  totalFolders: number;\n  completedFolders: number;\n  currentFile?: string;\n}\n\n/**\n * @deprecated Use UploadOptions from upload module\n */\nexport interface UploadDirectoryOptions {\n  /** Collection to upload into */\n  collectionId: string;\n  /** Parent folder ID (optional - creates at root if not provided) */\n  parentFolderId?: string;\n  /** Progress callback */\n  onProgress?: (progress: UploadProgress) => void;\n  /** Max concurrent uploads */\n  concurrency?: number;\n}\n\n/**\n * @deprecated Use UploadResult from upload module\n */\nexport interface UploadDirectoryResult {\n  /** Root folder entity */\n  rootFolder: unknown;\n  /** All created folder entities */\n  folders: unknown[];\n  /** All created file entities */\n  files: unknown[];\n}\n\n/**\n * Folder operations helper\n *\n * @deprecated Use uploadTree and scanDirectory functions instead:\n * ```typescript\n * import { uploadTree, scanDirectory } from '@arke-institute/sdk/operations';\n *\n * const tree = await scanDirectory('/path/to/folder');\n * const result = await uploadTree(client, tree, {\n *   target: { collectionId: '...' },\n *   onProgress: (p) => console.log(`${p.completedFiles}/${p.totalFiles} files`),\n * });\n * ```\n */\nexport class FolderOperations {\n  constructor(private client: ArkeClient) {}\n\n  /**\n   * Upload a local directory to Arke\n   *\n   * @deprecated Use uploadTree and scanDirectory instead\n   */\n  async uploadDirectory(\n    localPath: string,\n    options: UploadDirectoryOptions\n  ): Promise<UploadDirectoryResult> {\n    // Use the new implementation\n    const tree = await scanDirectory(localPath);\n\n    const result: UploadResult = await uploadTree(this.client, tree, {\n      target: {\n        collectionId: options.collectionId,\n        parentId: options.parentFolderId,\n      },\n      concurrency: options.concurrency,\n      onProgress: options.onProgress\n        ? (p) => {\n            // Map new progress to old format\n            options.onProgress!({\n              phase:\n                p.phase === 'creating'\n                  ? 'creating-folders'\n                  : p.phase === 'uploading'\n                    ? 'uploading-files'\n                    : p.phase === 'backlinking'\n                      ? 'linking'\n                      : p.phase === 'complete'\n                        ? 'complete'\n                        : 'scanning',\n              totalFiles: p.totalEntities,\n              completedFiles: p.completedEntities,\n              totalFolders: p.totalParents,\n              completedFolders: p.completedParents,\n              currentFile: p.currentItem,\n            });\n          }\n        : undefined,\n    });\n\n    return {\n      rootFolder: result.folders[0] || null,\n      folders: result.folders,\n      files: result.files,\n    };\n  }\n}\n","/**\n * Batch Operations\n *\n * High-level operations for bulk entity and relationship management.\n *\n * TODO: Implement batch operations\n * - createEntities: Create multiple entities in parallel\n * - updateEntities: Update multiple entities in parallel\n * - createRelationships: Create multiple relationships in parallel\n */\n\nimport type { ArkeClient } from '../client/ArkeClient.js';\n\nexport interface BatchCreateOptions {\n  /** Max concurrent operations */\n  concurrency?: number;\n  /** Continue on individual failures */\n  continueOnError?: boolean;\n  /** Progress callback */\n  onProgress?: (completed: number, total: number) => void;\n}\n\nexport interface BatchResult<T> {\n  /** Successfully completed operations */\n  succeeded: T[];\n  /** Failed operations with errors */\n  failed: Array<{ input: unknown; error: Error }>;\n}\n\n/**\n * Batch operations helper\n *\n * @example\n * ```typescript\n * const batch = new BatchOperations(arkeClient);\n * const result = await batch.createEntities([\n *   { type: 'document', properties: { title: 'Doc 1' } },\n *   { type: 'document', properties: { title: 'Doc 2' } },\n * ], { concurrency: 5 });\n * ```\n */\nexport class BatchOperations {\n  constructor(private client: ArkeClient) {}\n\n  /**\n   * Create multiple entities in parallel\n   *\n   * TODO: Implement this method\n   */\n  async createEntities(\n    _entities: Array<{\n      collectionId: string;\n      type: string;\n      properties?: Record<string, unknown>;\n    }>,\n    _options?: BatchCreateOptions\n  ): Promise<BatchResult<unknown>> {\n    throw new Error('BatchOperations.createEntities is not yet implemented');\n  }\n\n  /**\n   * Create multiple relationships in parallel\n   *\n   * TODO: Implement this method\n   */\n  async createRelationships(\n    _relationships: Array<{\n      sourceId: string;\n      targetId: string;\n      predicate: string;\n      bidirectional?: boolean;\n      properties?: Record<string, unknown>;\n    }>,\n    _options?: BatchCreateOptions\n  ): Promise<BatchResult<unknown>> {\n    throw new Error('BatchOperations.createRelationships is not yet implemented');\n  }\n}\n","/**\n * Crypto Operations\n *\n * Cryptographic utilities for agents and content addressing.\n *\n * TODO: Implement crypto operations\n * - generateKeyPair: Generate Ed25519 key pair for agent authentication\n * - signPayload: Sign a payload with agent private key\n * - computeCID: Compute IPFS CID for content\n */\n\n/**\n * Ed25519 key pair for agent authentication\n */\nexport interface KeyPair {\n  /** Public key in base64 */\n  publicKey: string;\n  /** Private key in base64 (keep secret!) */\n  privateKey: string;\n}\n\n/**\n * Signed payload with signature\n */\nexport interface SignedPayload {\n  /** Original payload */\n  payload: string;\n  /** Ed25519 signature in base64 */\n  signature: string;\n  /** Timestamp of signature */\n  timestamp: number;\n}\n\n/**\n * Crypto operations helper\n *\n * @example\n * ```typescript\n * // Generate key pair for a new agent\n * const { publicKey, privateKey } = await CryptoOperations.generateKeyPair();\n *\n * // Sign a payload\n * const signed = await CryptoOperations.signPayload(privateKey, payload);\n * ```\n */\nexport class CryptoOperations {\n  /**\n   * Generate an Ed25519 key pair for agent authentication\n   *\n   * TODO: Implement using Node.js crypto or Web Crypto API\n   */\n  static async generateKeyPair(): Promise<KeyPair> {\n    throw new Error('CryptoOperations.generateKeyPair is not yet implemented');\n  }\n\n  /**\n   * Sign a payload with an Ed25519 private key\n   *\n   * TODO: Implement signature generation\n   */\n  static async signPayload(_privateKey: string, _payload: string): Promise<SignedPayload> {\n    throw new Error('CryptoOperations.signPayload is not yet implemented');\n  }\n\n  /**\n   * Verify an Ed25519 signature\n   *\n   * TODO: Implement signature verification\n   */\n  static async verifySignature(\n    _publicKey: string,\n    _payload: string,\n    _signature: string\n  ): Promise<boolean> {\n    throw new Error('CryptoOperations.verifySignature is not yet implemented');\n  }\n\n  /**\n   * Compute IPFS CID for content\n   *\n   * TODO: Implement using multiformats library\n   */\n  static async computeCID(_content: Uint8Array): Promise<string> {\n    throw new Error('CryptoOperations.computeCID is not yet implemented');\n  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