npm - @semiont/content - Versions diffs - 0.5.6 → 0.5.8 - Mend

@semiont/content 0.5.6 → 0.5.8

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Files changed (5) hide show

package/README.md CHANGED Viewed

@@ -6,7 +6,7 @@
 [![npm downloads](https://img.shields.io/npm/dm/@semiont/content.svg)](https://www.npmjs.com/package/@semiont/content)
 [![License](https://img.shields.io/npm/l/@semiont/content.svg)](https://github.com/The-AI-Alliance/semiont/blob/main/LICENSE)
-Content-addressed storage using SHA-256 checksums with automatic deduplication and W3C compliance.
+Working-tree storage for project resources, with optional git staging, plus PDF text-layer extraction.
 ## Installation
@@ -16,223 +16,115 @@ npm install @semiont/content
 ## Architecture Context
-**Infrastructure Ownership**: In production applications, the representation store is **created and managed by [@semiont/make-meaning](../make-meaning/)'s `startMakeMeaning()` function**, which serves as the single orchestration point for all infrastructure components (EventStore, GraphDB, RepStore, InferenceClient, JobQueue, Workers).
+**Infrastructure Ownership**: In production applications, the working tree store is **created and managed by [@semiont/make-meaning](../make-meaning/)'s `startMakeMeaning()` function**, which serves as the single orchestration point for all infrastructure components. Backend code accesses it as `knowledgeBase.content`.
-The quick start example below shows direct instantiation for **testing, CLI tools, or content management scripts**. For backend integration, access the representation store through the `makeMeaning` context object.
+The quick start example below shows direct instantiation for **testing, CLI tools, or content management scripts**.
 ## Quick Start
 ```typescript
-import { FilesystemRepresentationStore } from '@semiont/content';
+import { WorkingTreeStore, deriveStorageUri } from '@semiont/content';
+import { SemiontProject } from '@semiont/core/node';
-const store = new FilesystemRepresentationStore({
-  basePath: '/path/to/storage'
-});
+const project = new SemiontProject('/path/to/project');
+const store = new WorkingTreeStore(project);
-// Store content - checksum becomes the address
-const content = Buffer.from('Hello, World!');
-const stored = await store.store(content, {
-  mediaType: 'text/plain',
-  language: 'en',
-  rel: 'original'
-});
+// Derive a stable file:// URI from a resource name
+const uri = deriveStorageUri('My Document', 'text/markdown');
+// => "file://my-document.md"
-console.log(stored.checksum); // sha256:abc123...
+// Write content to the working tree (API/GUI/AI path)
+const stored = await store.store(Buffer.from('# My Document\n'), uri);
+console.log(stored.checksum);  // SHA-256 hex of the content
+console.log(stored.byteSize);  // 14
-// Retrieve by checksum
-const retrieved = await store.retrieve(stored.checksum, 'text/plain');
-console.log(retrieved.toString()); // "Hello, World!"
+// Register a file that is already on disk (CLI path)
+const registered = await store.register('file://docs/overview.md');
-// Same content = same checksum (deduplication)
-const duplicate = await store.store(content, {
-  mediaType: 'text/plain',
-  rel: 'copy'
-});
+// Read content back by URI
+const content = await store.retrieve(uri);
+console.log(content.toString()); // "# My Document\n"
-console.log(duplicate.checksum === stored.checksum); // true
+// Move and remove files
+await store.move(uri, 'file://docs/my-document.md');
+await store.remove('file://docs/my-document.md');
 ```
-## Features
+## Working Tree Storage
-- 🔐 **Content-Addressed** - SHA-256 checksum as identifier
-- 🎯 **Automatic Deduplication** - Identical content stored once
-- 🗂️ **Smart Sharding** - 65,536 directories for scalability
-- 📊 **W3C Compliant** - Full representation metadata support
-- 🏷️ **MIME Type Support** - 80+ types with proper extensions
-- 🌍 **Multilingual** - Language and encoding metadata
+The working tree (project root) is the source of truth for file content. Resources are identified by their `file://` URI, which is stable across content changes; moves are tracked by events.
-## Documentation
-- [API Reference](./docs/API.md) - Complete API documentation
-- [Architecture](./docs/architecture.md) - Design principles
-## Storage Architecture
-### Content Addressing
-Every piece of content is addressed by its SHA-256 checksum:
-```typescript
-const checksum = calculateChecksum(content);
-// sha256:5aaa0b72c1f4d8e7a9f2c8b3d4e5f6a7b8c9d0e1f2a3b4c5d6e7f8a9b0c1d2e3
 ```
-### Storage Path Structure
-In a semiont project, `basePath` is the project root (the directory containing
-`.semiont/`). The `representations/` directory is committed to version control —
-it is the durable content store for the project.
-```
-my-project/               ← basePath (project root)
-└── representations/
-    └── {mediaType}/      # URL-encoded MIME type
-        └── {ab}/         # First 2 hex chars of checksum
-            └── {cd}/     # Next 2 hex chars (65,536 shards)
-                └── rep-{checksum}.{ext}
+my-project/                  ← project root
+├── .semiont/                ← project config and event log
+└── docs/
+    └── overview.md          ← storageUri "file://docs/overview.md"
 ```
-Example paths:
-```
-representations/text~1plain/5a/aa/rep-5aaa0b72...abc.txt
-representations/image~1png/ff/12/rep-ff123456...def.png
-representations/application~1json/ab/cd/rep-abcd1234...123.json
-```
+There are two write paths:
-### Deduplication
+- **`store(content, storageUri)`** — write bytes to disk. Used when the file does not yet exist and the caller provides content (API/GUI/AI path).
+- **`register(storageUri, expectedChecksum?)`** — read an existing file and record its metadata (CLI path). If `expectedChecksum` is provided and does not match, throws `ChecksumMismatchError`.
-Content-addressed storage provides automatic deduplication:
+Both return the same metadata:
 ```typescript
-// Store same content 100 times
-for (let i = 0; i < 100; i++) {
-  await store.store(identicalContent, metadata);
+interface StoredResource {
+  storageUri: string;    // file:// URI (e.g. "file://docs/overview.md")
+  checksum: string;      // SHA-256 hex of content
+  byteSize: number;      // Size in bytes
+  created: string;       // ISO 8601 timestamp
 }
-// Result: Only ONE file on disk
 ```
-## API Overview
+### Git Integration
-### FilesystemRepresentationStore
+When the project has `[git] sync = true` in `.semiont/config`, the store keeps the git index up to date automatically:
-```typescript
-const store = new FilesystemRepresentationStore({
-  basePath: '/data/storage'  // Root storage directory
-});
-```
+- `store()` / `register()` run `git add`
+- `move()` runs `git mv`
+- `remove()` runs `git rm` (or `git rm --cached` with `keepFile: true`)
-### Store Content
+Every method accepts `{ noGit: true }` to skip staging for a single call. Without git sync, the store falls back to plain filesystem operations.
-```typescript
-const stored = await store.store(
-  content: Buffer,
-  metadata: {
-    mediaType: string;      // Required: MIME type
-    filename?: string;      // Optional: Original filename
-    encoding?: string;      // Optional: Character encoding
-    language?: string;      // Optional: ISO language code
-    rel?: string;          // Optional: Relationship type
-  }
-): Promise<StoredRepresentation>
-```
+## PDF Text-Layer Extraction
-### Retrieve Content
+For native (non-scanned) PDFs, `extractPdfTextLayer()` extracts positioned text using [pdfjs-dist](https://www.npmjs.com/package/pdfjs-dist). It returns `null` for scanned/image-only PDFs.
 ```typescript
-const buffer = await store.retrieve(
-  checksum: string,        // SHA-256 checksum
-  mediaType: string        // MIME type for path lookup
-): Promise<Buffer>
-```
+import { extractPdfTextLayer, locate } from '@semiont/content';
-### Types
+const layer = await extractPdfTextLayer(pdfBytes);
+if (layer) {
+  console.log(layer.text);          // Full extracted text
+  console.log(layer.pages.length);  // Page dimensions in PDF points
-```typescript
-interface StoredRepresentation {
-  '@id': string;           // Content URI
-  checksum: string;        // SHA-256 hex (64 chars)
-  byteSize: number;        // Content size in bytes
-  mediaType: string;       // MIME type
-  created: string;         // ISO 8601 timestamp
-  language?: string;       // ISO language code
-  encoding?: string;       // Character encoding
-  rel?: string;           // Relationship type
+  // Find bounding rectangles for a span of the text (one per line)
+  const rects = locate(layer, 120, 178);
+  // => PdfCoordinate[] in PDF point space (origin: bottom-left)
 }
 ```
-## Supported MIME Types
-The package includes 80+ MIME type mappings:
-| Type | Extensions | Example |
-|------|-----------|---------|
-| Text | `.txt`, `.md`, `.html`, `.csv` | `text/plain` → `.txt` |
-| Documents | `.pdf`, `.doc`, `.docx` | `application/pdf` → `.pdf` |
-| Images | `.png`, `.jpg`, `.gif`, `.webp` | `image/png` → `.png` |
-| Audio | `.mp3`, `.wav`, `.ogg` | `audio/mpeg` → `.mp3` |
-| Video | `.mp4`, `.webm`, `.mov` | `video/mp4` → `.mp4` |
-| Code | `.js`, `.ts`, `.py`, `.java` | `text/javascript` → `.js` |
-| Data | `.json`, `.xml`, `.yaml` | `application/json` → `.json` |
+Coordinates are in PDF point space, originating from the bottom-left of the page. The Y-flip to canvas pixels happens downstream in the browser; the server has no canvas. The `PdfCoordinate` geometry type lives in `@semiont/core` alongside the viewrect FragmentSelector codec.
-Unknown types default to `.dat` extension.
-## W3C Compliance
-Full support for W3C representation metadata:
+## Utilities
 ```typescript
-const stored = await store.store(content, {
-  mediaType: 'text/html',
-  language: 'en-US',
-  encoding: 'UTF-8',
-  rel: 'original'
-});
-// W3C-compliant metadata
-{
-  "@id": "urn:sha256:abc123...",
-  "@type": "Representation",
-  "checksum": "sha256:abc123...",
-  "mediaType": "text/html",
-  "language": "en-US",
-  "encoding": "UTF-8",
-  "rel": "original",
-  "byteSize": 1234,
-  "created": "2024-01-01T00:00:00Z"
-}
+import {
+  calculateChecksum,       // SHA-256 hex of a string or Buffer
+  verifyChecksum,          // Compare content against an expected checksum
+  deriveStorageUri,        // ("My Doc", "text/markdown") → "file://my-doc.md"
+} from '@semiont/content';
 ```
-## Performance
-- **SHA-256 Calculation**: ~500 MB/s on modern CPUs
-- **Write Performance**: Limited by filesystem (typically ~100 MB/s)
-- **Read Performance**: O(1) direct path lookup
-- **Sharding**: 65,536 directories prevent filesystem bottlenecks
-- **Deduplication**: 100% space savings for duplicate content
+`deriveStorageUri` takes a `SupportedMediaType`; the media-type registry —
+which types are admitted, their extensions, and their capabilities — lives in
+[@semiont/core](../core/)'s `media-types.ts`. See [docs/mime-types.md](./docs/mime-types.md).
-## Best Practices
-1. **Use Buffers**: Always pass content as Buffer for binary safety
-2. **Specify MIME Types**: Required for proper file extensions
-3. **Add Language Metadata**: Important for multilingual content
-4. **Handle Missing Content**: Check existence before retrieval
-5. **Monitor Storage**: Track disk usage and shard distribution
-## Error Handling
+## Documentation
-```typescript
-try {
-  const retrieved = await store.retrieve(checksum, mediaType);
-} catch (error) {
-  if (error.code === 'ENOENT') {
-    // Content not found
-  } else if (error.code === 'EACCES') {
-    // Permission denied
-  } else {
-    // Other filesystem error
-  }
-}
-```
+- [API Reference](./docs/API.md) - Complete API documentation
+- [Architecture](./docs/architecture.md) - Design principles
 ## Development
@@ -252,4 +144,4 @@ npm run typecheck
 ## License
-Apache-2.0
+Apache-2.0

package/dist/index.d.ts CHANGED Viewed

@@ -1,5 +1,5 @@
 import { SemiontProject } from '@semiont/core/node';
-import { Logger, PdfCoordinate } from '@semiont/core';
+import { Logger, SupportedMediaType, PdfCoordinate } from '@semiont/core';
 /**
  * WorkingTreeStore - Manages files in the project working tree
@@ -129,37 +129,24 @@ declare class ChecksumMismatchError extends Error {
 }
 /**
- * MIME Type to File Extension Mapping
+ * Storage URI Derivation
  *
- * Maps common MIME types to their standard file extensions.
- * Used by RepresentationStore to save files with proper extensions.
+ * Builds the file:// URI a resource lives at in the working tree from its
+ * name and validated media type. Extensions come from the media-type
+ * registry in @semiont/core; formats are validated upstream at the
+ * create/yield boundary, so the lookup is strict — no fallback.
  */
 /**
- * Get file extension for a MIME type
- *
- * @param mediaType - MIME type (e.g., "text/markdown")
- * @returns File extension with leading dot (e.g., ".md") or ".dat" if unknown
+ * Derive a file:// storage URI from a resource name and media type.
  *
- * @example
- * getExtensionForMimeType('text/markdown') // => '.md'
- * getExtensionForMimeType('image/png')     // => '.png'
- * getExtensionForMimeType('unknown/type')  // => '.dat'
- */
-declare function getExtensionForMimeType(mediaType: string): string;
-/**
- * Derive a file:// storage URI from a resource name and MIME type.
+ * The name is lowercased, runs of non-alphanumeric characters collapse to
+ * single hyphens, and leading/trailing hyphens are stripped.
  *
  * @example
  * deriveStorageUri("My Document", "text/markdown") // => "file://my-document.md"
  */
-declare function deriveStorageUri(name: string, format: string): string;
-/**
- * Check if a MIME type has a known extension mapping
- *
- * @param mediaType - MIME type to check
- * @returns true if extension is known, false if would fallback to .dat
- */
-declare function hasKnownExtension(mediaType: string): boolean;
+declare function deriveStorageUri(name: string, format: SupportedMediaType): string;
 /**
  * Checksum utilities for content verification
@@ -243,5 +230,5 @@ declare function extractPdfTextLayer(bytes: Uint8Array | Buffer): Promise<PdfTex
  */
 declare function locate(layer: PdfTextLayer, start: number, end: number): PdfCoordinate[];
-export { ChecksumMismatchError, WorkingTreeStore, calculateChecksum, deriveStorageUri, extractPdfTextLayer, getExtensionForMimeType, hasKnownExtension, locate, verifyChecksum };
+export { ChecksumMismatchError, WorkingTreeStore, calculateChecksum, deriveStorageUri, extractPdfTextLayer, locate, verifyChecksum };
 export type { PdfPageInfo, PdfTextItem, PdfTextLayer, StoredResource };

package/dist/index.js CHANGED Viewed

@@ -195,101 +195,18 @@ The file on disk differs from the recorded checksum. Has it been modified since
   actual;
 };
-// src/mime-extensions.ts
-var MIME_TO_EXTENSION = {
-  // Text formats
-  "text/plain": ".txt",
-  "text/markdown": ".md",
-  "text/html": ".html",
-  "text/css": ".css",
-  "text/csv": ".csv",
-  "text/xml": ".xml",
-  // Application formats - structured data
-  "application/json": ".json",
-  "application/xml": ".xml",
-  "application/yaml": ".yaml",
-  "application/x-yaml": ".yaml",
-  // Application formats - documents
-  "application/pdf": ".pdf",
-  "application/msword": ".doc",
-  "application/vnd.openxmlformats-officedocument.wordprocessingml.document": ".docx",
-  "application/vnd.ms-excel": ".xls",
-  "application/vnd.openxmlformats-officedocument.spreadsheetml.sheet": ".xlsx",
-  "application/vnd.ms-powerpoint": ".ppt",
-  "application/vnd.openxmlformats-officedocument.presentationml.presentation": ".pptx",
-  // Application formats - archives
-  "application/zip": ".zip",
-  "application/gzip": ".gz",
-  "application/x-tar": ".tar",
-  "application/x-7z-compressed": ".7z",
-  // Application formats - executables/binaries
-  "application/octet-stream": ".bin",
-  "application/wasm": ".wasm",
-  // Image formats
-  "image/png": ".png",
-  "image/jpeg": ".jpg",
-  "image/gif": ".gif",
-  "image/webp": ".webp",
-  "image/svg+xml": ".svg",
-  "image/bmp": ".bmp",
-  "image/tiff": ".tiff",
-  "image/x-icon": ".ico",
-  // Audio formats
-  "audio/mpeg": ".mp3",
-  "audio/wav": ".wav",
-  "audio/ogg": ".ogg",
-  "audio/webm": ".webm",
-  "audio/aac": ".aac",
-  "audio/flac": ".flac",
-  // Video formats
-  "video/mp4": ".mp4",
-  "video/mpeg": ".mpeg",
-  "video/webm": ".webm",
-  "video/ogg": ".ogv",
-  "video/quicktime": ".mov",
-  "video/x-msvideo": ".avi",
-  // Programming languages
-  "text/javascript": ".js",
-  "application/javascript": ".js",
-  "text/x-typescript": ".ts",
-  "application/typescript": ".ts",
-  "text/x-python": ".py",
-  "text/x-java": ".java",
-  "text/x-c": ".c",
-  "text/x-c++": ".cpp",
-  "text/x-csharp": ".cs",
-  "text/x-go": ".go",
-  "text/x-rust": ".rs",
-  "text/x-ruby": ".rb",
-  "text/x-php": ".php",
-  "text/x-swift": ".swift",
-  "text/x-kotlin": ".kt",
-  "text/x-shell": ".sh",
-  // Font formats
-  "font/woff": ".woff",
-  "font/woff2": ".woff2",
-  "font/ttf": ".ttf",
-  "font/otf": ".otf"
-};
-function getExtensionForMimeType(mediaType) {
-  const normalized = mediaType.toLowerCase().split(";")[0].trim();
-  const extension = MIME_TO_EXTENSION[normalized];
-  return extension || ".dat";
-}
+// src/storage-uri.ts
+import { MEDIA_TYPES } from "@semiont/core";
 function deriveStorageUri(name, format) {
   const slug = name.toLowerCase().replace(/[^a-z0-9]+/g, "-").replace(/^-|-$/g, "");
-  const ext = getExtensionForMimeType(format);
-  return `file://${slug}${ext}`;
-}
-function hasKnownExtension(mediaType) {
-  const normalized = mediaType.toLowerCase().split(";")[0].trim();
-  return normalized in MIME_TO_EXTENSION;
+  return `file://${slug}${MEDIA_TYPES[format].extension}`;
 }
 // src/extract-pdf-text-layer.ts
 import * as pdfjs from "pdfjs-dist/legacy/build/pdf.mjs";
 async function extractPdfTextLayer(bytes) {
-  const doc = await pdfjs.getDocument({ data: bytes }).promise;
+  const loadingTask = pdfjs.getDocument({ data: bytes });
+  const doc = await loadingTask.promise;
   try {
     const pages = [];
     const items = [];
@@ -331,7 +248,7 @@ async function extractPdfTextLayer(bytes) {
     if (!hasAnyTextItems) return null;
     return { pages, text, items };
   } finally {
-    await doc.destroy();
+    await loadingTask.destroy();
   }
 }
@@ -389,8 +306,6 @@ export {
   calculateChecksum,
   deriveStorageUri,
   extractPdfTextLayer,
-  getExtensionForMimeType,
-  hasKnownExtension,
   locate,
   verifyChecksum
 };

package/dist/index.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"sources":["../src/working-tree-store.ts","../src/checksum.ts","../src/mime-extensions.ts","../src/extract-pdf-text-layer.ts","../src/locate.ts"],"sourcesContent":["/*\n WorkingTreeStore - Manages files in the project working tree\n \n Unlike the old content-addressed RepresentationStore, this store treats\n * the working tree (project root) as the source of truth for file content.\n * Resources are identified by their file:// URI, which is stable across\n * content changes and moves (tracked by events).\n \n Two write paths:\n * - store(content, storageUri): Write bytes to disk (API/GUI/AI path).\n * Used when the file does not yet exist and the caller provides content.\n * - register(storageUri, expectedChecksum?): Read an existing file and\n * return its metadata (CLI path). The file is already on disk; we just\n * verify and record it. If expectedChecksum is provided, throws on mismatch.\n \n Storage layout:\n * {projectRoot}/{path-from-uri}\n \n For example, storageUri \"file://docs/overview.md\" resolves to\n * {projectRoot}/docs/overview.md\n /\n\nimport { promises as fs } from 'fs';\nimport { execFileSync } from 'child_process';\nimport path from 'path';\nimport type { SemiontProject } from '@semiont/core/node';\nimport type { Logger } from '@semiont/core';\nimport { calculateChecksum, verifyChecksum } from './checksum';\n\n/\n Result of store() or register()\n /\nexport interface StoredResource {\n storageUri: string; // file:// URI (e.g. \"file://docs/overview.md\")\n checksum: string; // SHA-256 hex of content\n byteSize: number; // Size in bytes\n created: string; // ISO 8601 timestamp\n}\n\n/\n Manages files in the project working tree\n /\nexport class WorkingTreeStore {\n private projectRoot: string;\n private gitSync: boolean;\n private logger?: Logger;\n\n constructor(project: SemiontProject, logger?: Logger) {\n this.projectRoot = project.root;\n this.gitSync = project.gitSync;\n this.logger = logger;\n }\n\n private shouldRunGit(noGit?: boolean): boolean {\n return this.gitSync && !noGit;\n }\n\n /\n Write content to disk at the location indicated by storageUri.\n \n API/GUI/AI path: caller provides bytes; file may not yet exist.\n \n @param content - Raw bytes to write\n * @param storageUri - file:// URI (e.g. \"file://docs/overview.md\")\n * @returns Stored resource metadata\n /\n async store(content: Buffer, storageUri: string, options?: { noGit?: boolean }): Promise<StoredResource> {\n const filePath = this.resolveUri(storageUri);\n const checksum = calculateChecksum(content);\n\n this.logger?.debug('Storing resource', { storageUri, byteSize: content.length });\n\n await fs.mkdir(path.dirname(filePath), { recursive: true });\n await fs.writeFile(filePath, content);\n\n if (this.shouldRunGit(options?.noGit)) {\n execFileSync('git', ['add', filePath], { cwd: this.projectRoot });\n }\n\n this.logger?.info('Resource stored', { storageUri, checksum, byteSize: content.length });\n\n return {\n storageUri,\n checksum,\n byteSize: content.length,\n created: new Date().toISOString(),\n };\n }\n\n /\n Read an existing file and return its metadata.\n \n CLI path: the file is already on disk. We read it to compute the checksum.\n * If expectedChecksum is provided, throws ChecksumMismatchError on mismatch.\n \n @param storageUri - file:// URI (e.g. \"file://docs/overview.md\")\n * @param expectedChecksum - Optional SHA-256 to verify against\n * @returns Stored resource metadata\n * @throws ChecksumMismatchError if expectedChecksum is provided and does not match\n * @throws Error if file does not exist\n /\n async register(storageUri: string, expectedChecksum?: string, options?: { noGit?: boolean }): Promise<StoredResource> {\n const filePath = this.resolveUri(storageUri);\n\n this.logger?.debug('Registering resource', { storageUri });\n\n const content = await fs.readFile(filePath);\n const checksum = calculateChecksum(content);\n\n if (expectedChecksum !== undefined && !verifyChecksum(content, expectedChecksum)) {\n throw new ChecksumMismatchError(storageUri, expectedChecksum, checksum);\n }\n\n if (this.shouldRunGit(options?.noGit)) {\n execFileSync('git', ['add', filePath], { cwd: this.projectRoot });\n }\n\n this.logger?.info('Resource registered', { storageUri, checksum, byteSize: content.length });\n\n return {\n storageUri,\n checksum,\n byteSize: content.length,\n created: new Date().toISOString(),\n };\n }\n\n /\n Read file content by URI.\n \n @param storageUri - file:// URI\n * @returns Raw bytes\n /\n async retrieve(storageUri: string): Promise<Buffer> {\n const filePath = this.resolveUri(storageUri);\n try {\n return await fs.readFile(filePath);\n } catch (error: any) {\n if (error.code === 'ENOENT') {\n throw new Error(`Resource not found: ${storageUri}`);\n }\n throw error;\n }\n }\n\n /\n Move a file from one URI to another.\n \n If .git/ exists in the project root and noGit is not set, runs `git mv`.\n * Otherwise (no .git/ or noGit: true), runs fs.rename.\n \n @param fromUri - Current file:// URI\n * @param toUri - New file:// URI\n * @param options.noGit - Skip git mv even if .git/ is present\n /\n async move(fromUri: string, toUri: string, options?: { noGit?: boolean }): Promise<void> {\n const fromPath = this.resolveUri(fromUri);\n const toPath = this.resolveUri(toUri);\n\n this.logger?.debug('Moving resource', { fromUri, toUri });\n\n await fs.mkdir(path.dirname(toPath), { recursive: true });\n\n if (this.shouldRunGit(options?.noGit)) {\n // git mv handles both the filesystem rename and the index update\n execFileSync('git', ['mv', fromPath, toPath], { cwd: this.projectRoot });\n } else {\n await fs.rename(fromPath, toPath);\n }\n\n this.logger?.info('Resource moved', { fromUri, toUri });\n }\n\n /\n Remove a file from the working tree.\n \n If .git/ exists and noGit is not set:\n * - keepFile false (default): runs `git rm` (removes from index and disk)\n * - keepFile true: runs `git rm --cached` (removes from index only, file stays on disk)\n * If no .git/ or noGit: true:\n * - keepFile false: runs fs.unlink\n * - keepFile true: no-op on filesystem\n \n @param storageUri - file:// URI\n * @param options.noGit - Skip git rm even if .git/ is present\n * @param options.keepFile - Remove from git index only; leave file on disk\n /\n async remove(storageUri: string, options?: { noGit?: boolean; keepFile?: boolean }): Promise<void> {\n const filePath = this.resolveUri(storageUri);\n const keepFile = options?.keepFile ?? false;\n\n this.logger?.debug('Removing resource', { storageUri, keepFile });\n\n const useGit = this.shouldRunGit(options?.noGit);\n\n if (useGit) {\n const gitArgs = keepFile\n ? ['rm', '--cached', filePath]\n : ['rm', filePath];\n execFileSync('git', gitArgs, { cwd: this.projectRoot });\n this.logger?.info('Resource removed', { storageUri, keepFile, git: true });\n return;\n }\n\n if (keepFile) {\n this.logger?.info('Resource removed from index (file kept on disk)', { storageUri });\n return;\n }\n\n try {\n await fs.unlink(filePath);\n this.logger?.info('Resource removed', { storageUri });\n } catch (error: any) {\n if (error.code === 'ENOENT') {\n this.logger?.warn('Resource file already absent', { storageUri });\n return;\n }\n throw error;\n }\n }\n\n /\n Convert a file:// URI to an absolute filesystem path.\n \n \"file://docs/overview.md\" → \"{projectRoot}/docs/overview.md\"\n \n @param storageUri - file:// URI\n * @returns Absolute path\n /\n resolveUri(storageUri: string): string {\n if (!storageUri.startsWith('file://')) {\n throw new Error(`Invalid storage URI (must start with file://): ${storageUri}`);\n }\n const relativePath = storageUri.slice('file://'.length);\n return path.join(this.projectRoot, relativePath);\n }\n}\n\n/\n Thrown when a registered file's checksum does not match the expected value.\n * This indicates the file on disk differs from what was recorded (e.g. modified\n * after staging, or wrong file path provided).\n /\nexport class ChecksumMismatchError extends Error {\n constructor(\n readonly storageUri: string,\n readonly expected: string,\n readonly actual: string,\n ) {\n super(\n `Checksum mismatch for ${storageUri}: expected ${expected.slice(0, 8)}... but got ${actual.slice(0, 8)}...\\n` +\n `The file on disk differs from the recorded checksum. Has it been modified since staging?`\n );\n this.name = 'ChecksumMismatchError';\n }\n}\n","/\n Checksum utilities for content verification\n /\n\nimport { createHash } from 'crypto';\n\n/\n Calculate SHA-256 checksum of content\n * @param content The content to hash\n * @returns Hex-encoded SHA-256 hash\n /\nexport function calculateChecksum(content: string \| Buffer): string {\n const hash = createHash('sha256');\n hash.update(content);\n return hash.digest('hex');\n}\n\n/\n Verify content against a checksum\n * @param content The content to verify\n * @param checksum The expected checksum\n * @returns True if content matches checksum\n /\nexport function verifyChecksum(content: string \| Buffer, checksum: string): boolean {\n return calculateChecksum(content) === checksum;\n}\n","/\n MIME Type to File Extension Mapping\n \n Maps common MIME types to their standard file extensions.\n * Used by RepresentationStore to save files with proper extensions.\n /\n\n/\n Comprehensive MIME type to extension mapping\n /\nconst MIME_TO_EXTENSION: Record<string, string> = {\n // Text formats\n 'text/plain': '.txt',\n 'text/markdown': '.md',\n 'text/html': '.html',\n 'text/css': '.css',\n 'text/csv': '.csv',\n 'text/xml': '.xml',\n\n // Application formats - structured data\n 'application/json': '.json',\n 'application/xml': '.xml',\n 'application/yaml': '.yaml',\n 'application/x-yaml': '.yaml',\n\n // Application formats - documents\n 'application/pdf': '.pdf',\n 'application/msword': '.doc',\n 'application/vnd.openxmlformats-officedocument.wordprocessingml.document': '.docx',\n 'application/vnd.ms-excel': '.xls',\n 'application/vnd.openxmlformats-officedocument.spreadsheetml.sheet': '.xlsx',\n 'application/vnd.ms-powerpoint': '.ppt',\n 'application/vnd.openxmlformats-officedocument.presentationml.presentation': '.pptx',\n\n // Application formats - archives\n 'application/zip': '.zip',\n 'application/gzip': '.gz',\n 'application/x-tar': '.tar',\n 'application/x-7z-compressed': '.7z',\n\n // Application formats - executables/binaries\n 'application/octet-stream': '.bin',\n 'application/wasm': '.wasm',\n\n // Image formats\n 'image/png': '.png',\n 'image/jpeg': '.jpg',\n 'image/gif': '.gif',\n 'image/webp': '.webp',\n 'image/svg+xml': '.svg',\n 'image/bmp': '.bmp',\n 'image/tiff': '.tiff',\n 'image/x-icon': '.ico',\n\n // Audio formats\n 'audio/mpeg': '.mp3',\n 'audio/wav': '.wav',\n 'audio/ogg': '.ogg',\n 'audio/webm': '.webm',\n 'audio/aac': '.aac',\n 'audio/flac': '.flac',\n\n // Video formats\n 'video/mp4': '.mp4',\n 'video/mpeg': '.mpeg',\n 'video/webm': '.webm',\n 'video/ogg': '.ogv',\n 'video/quicktime': '.mov',\n 'video/x-msvideo': '.avi',\n\n // Programming languages\n 'text/javascript': '.js',\n 'application/javascript': '.js',\n 'text/x-typescript': '.ts',\n 'application/typescript': '.ts',\n 'text/x-python': '.py',\n 'text/x-java': '.java',\n 'text/x-c': '.c',\n 'text/x-c++': '.cpp',\n 'text/x-csharp': '.cs',\n 'text/x-go': '.go',\n 'text/x-rust': '.rs',\n 'text/x-ruby': '.rb',\n 'text/x-php': '.php',\n 'text/x-swift': '.swift',\n 'text/x-kotlin': '.kt',\n 'text/x-shell': '.sh',\n\n // Font formats\n 'font/woff': '.woff',\n 'font/woff2': '.woff2',\n 'font/ttf': '.ttf',\n 'font/otf': '.otf',\n};\n\n/\n Get file extension for a MIME type\n \n @param mediaType - MIME type (e.g., \"text/markdown\")\n * @returns File extension with leading dot (e.g., \".md\") or \".dat\" if unknown\n \n @example\n * getExtensionForMimeType('text/markdown') // => '.md'\n * getExtensionForMimeType('image/png') // => '.png'\n * getExtensionForMimeType('unknown/type') // => '.dat'\n /\nexport function getExtensionForMimeType(mediaType: string): string {\n // Normalize MIME type (lowercase, remove parameters)\n const normalized = mediaType.toLowerCase().split(';')[0]!.trim();\n\n // Look up in mapping\n const extension = MIME_TO_EXTENSION[normalized];\n\n // Return mapped extension or fallback to .dat\n return extension \|\| '.dat';\n}\n\n/\n Derive a file:// storage URI from a resource name and MIME type.\n \n @example\n * deriveStorageUri(\"My Document\", \"text/markdown\") // => \"file://my-document.md\"\n /\nexport function deriveStorageUri(name: string, format: string): string {\n const slug = name\n .toLowerCase()\n .replace(/[^a-z0-9]+/g, '-')\n .replace(/^-\|-$/g, '');\n const ext = getExtensionForMimeType(format);\n return `file://${slug}${ext}`;\n}\n\n/\n Check if a MIME type has a known extension mapping\n \n @param mediaType - MIME type to check\n * @returns true if extension is known, false if would fallback to .dat\n /\nexport function hasKnownExtension(mediaType: string): boolean {\n const normalized = mediaType.toLowerCase().split(';')[0]!.trim();\n return normalized in MIME_TO_EXTENSION;\n}\n","/\n PDF Text Layer Extraction\n \n Extracts positioned text from native, non-scanned PDFs using pdfjs-dist.\n * Returns null for scanned/image-only PDFs (no text items).\n \n Coordinates are in PDF point space, originating from the bottom-left.\n * The Y-flip to canvas pixels happens downstream.\n /\n\nimport as pdfjs from 'pdfjs-dist/legacy/build/pdf.mjs';\nimport type { PdfTextLayer, PdfPageInfo, PdfTextItem } from './pdf-text-layer';\n\nexport async function extractPdfTextLayer(\n bytes: Uint8Array \| Buffer\n): Promise<PdfTextLayer \| null> {\n // pdf.js v5 removed the isEvalSupported option; this path only calls\n // getTextContent (no rendering / no PDF functions).\n const doc = await pdfjs.getDocument({ data: bytes }).promise;\n\n try {\n const pages: PdfPageInfo[] = [];\n const items: PdfTextItem[] = [];\n let text = '';\n let hasAnyTextItems = false;\n\n for (let pageNum = 1; pageNum <= doc.numPages; pageNum++) {\n const page = await doc.getPage(pageNum);\n const viewport = page.getViewport({ scale: 1.0 });\n const content = await page.getTextContent(); // all text items on the page\n\n pages.push({\n pageNumber: pageNum,\n widthPt: viewport.width,\n heightPt: viewport.height,\n });\n\n for (const item of content.items) {\n if (!('str' in item)) continue; // skip marked-content items (no text)\n\n if (item.str.trim()) {\n hasAnyTextItems = true;\n const start = text.length;\n text += item.str;\n const end = text.length; // range covers only this run's own chars\n\n const [, , , , x, y] = item.transform as number[];\n\n items.push({\n start,\n end,\n page: pageNum,\n x,\n y,\n width: item.width,\n height: item.height,\n });\n\n // Separator AFTER recording the run, so its [start, end) never\n // includes it. pdf.js flags the last run on a line with hasEOL —\n // newline there, space between words otherwise, so reading-order\n // lines don't glue (e.g. \"textsecond\").\n text += item.hasEOL ? '\\n' : ' ';\n } else if (item.hasEOL) {\n // Standalone end-of-line marker (empty/whitespace str): keep the\n // line break without letting whitespace-only runs add stray spaces.\n text += '\\n';\n }\n }\n\n text += '\\n'; // page break\n }\n\n if (!hasAnyTextItems) return null;\n\n return { pages, text, items };\n } finally {\n // Release the pdf.js document — Phase 2 runs this in a long-lived worker pool.\n await doc.destroy();\n }\n}\n","import type { PdfCoordinate } from '@semiont/core';\nimport type { PdfTextLayer, PdfTextItem } from './pdf-text-layer';\n\n/*\n Items whose baseline Y is within this many PDF points are treated as being on\n * the same line. Tuned for ~12pt body text; revisit for documents with large or\n * variable font sizes (Phase 4 / #738).\n /\nconst SAME_LINE_THRESHOLD_PT = 2;\n\n/\n Locates bounding rectangles for a span of text in a PdfTextLayer\n * (single-line or multi-line).\n * \n * Finds all overlapping items [start, end), groups them by page and line,\n * and records one bounding rectangle per line as a PdfCoordinate.\n * \n * Returns array of PdfCoordinate, one per line of text covered by the span.\n * Returns empty array if no items overlap the span.\n /\nexport function locate(\n layer: PdfTextLayer,\n start: number,\n end: number\n): PdfCoordinate[] {\n const overlap: PdfTextItem[] = layer.items.filter(\n item => item.start < end && item.end > start\n );\n if (overlap.length === 0) return [];\n\n const pages: Map<number, PdfTextItem[]> = groupItemsByPage(overlap);\n const rects: PdfCoordinate[] = [];\n\n // for each page, group items into lines and compute one rectangle per line\n for (const [page, pageItems] of pages) {\n const lines = groupItemsByLine(pageItems, SAME_LINE_THRESHOLD_PT);\n // Compute one bounding rectangle per line and add it to rects\n for (const lineItems of lines) {\n const x = Math.min(...lineItems.map(i => i.x));\n const right = Math.max(...lineItems.map(i => i.x + i.width));\n const y = Math.min(...lineItems.map(i => i.y));\n const top = Math.max(...lineItems.map(i => i.y + i.height));\n rects.push({page, x, y, width: right - x, height: top - y});\n }\n }\n return rects;\n}\n\nfunction groupItemsByPage(items: PdfTextItem[]): Map<number, PdfTextItem[]> {\n const map = new Map<number, PdfTextItem[]>();\n for (const item of items) {\n const existing = map.get(item.page);\n if (existing) {\n existing.push(item);\n } else {\n map.set(item.page, [item]);\n }\n }\n return map;\n}\n\n\n/\n Sorts text items into lines when their y coordinates are\n * within `sameLineThreshold` points of each other.\n * Sorted top-to-bottom (descending y in PDF space), then left-to-right.\n * \n * Returns 2D array: \n * Outer array = list of lines\n * Inner array = list of items on that line\n*/\nfunction groupItemsByLine(items: PdfTextItem[], sameLineThreshold: number): PdfTextItem[][] {\n // Sort top-to-bottom by y; if y is equal, sort left-to-right by x\n const sorted = [...items].sort((a, b) => b.y - a.y \|\| a.x - b.x);\n const lines: PdfTextItem[][] = [];\n let currentLine: PdfTextItem[] = [];\n\n for (const item of sorted) {\n if (currentLine.length === 0 \|\| Math.abs(item.y - currentLine[0].y) <= sameLineThreshold) {\n currentLine.push(item);\n } else {\n lines.push(currentLine);\n currentLine = [item];\n }\n }\n if (currentLine.length > 0) lines.push(currentLine);\n return 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['rm', '--cached', filePath]\n : ['rm', filePath];\n execFileSync('git', gitArgs, { cwd: this.projectRoot });\n this.logger?.info('Resource removed', { storageUri, keepFile, git: true });\n return;\n }\n\n if (keepFile) {\n this.logger?.info('Resource removed from index (file kept on disk)', { storageUri });\n return;\n }\n\n try {\n await fs.unlink(filePath);\n this.logger?.info('Resource removed', { storageUri });\n } catch (error: any) {\n if (error.code === 'ENOENT') {\n this.logger?.warn('Resource file already absent', { storageUri });\n return;\n }\n throw error;\n }\n }\n\n /\n Convert a file:// URI to an absolute filesystem path.\n \n \"file://docs/overview.md\" → \"{projectRoot}/docs/overview.md\"\n \n @param storageUri - file:// URI\n * @returns Absolute path\n /\n resolveUri(storageUri: string): string {\n if (!storageUri.startsWith('file://')) {\n throw new Error(`Invalid storage URI (must start with file://): ${storageUri}`);\n }\n const relativePath = storageUri.slice('file://'.length);\n return path.join(this.projectRoot, relativePath);\n }\n}\n\n/\n Thrown when a registered file's checksum does not match the expected value.\n * This indicates the file on disk differs from what was recorded (e.g. modified\n * after staging, or wrong file path provided).\n /\nexport class ChecksumMismatchError extends Error {\n constructor(\n readonly storageUri: string,\n readonly expected: string,\n readonly actual: string,\n ) {\n super(\n `Checksum mismatch for ${storageUri}: expected ${expected.slice(0, 8)}... but got ${actual.slice(0, 8)}...\\n` +\n `The file on disk differs from the recorded checksum. 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Extensions come from the media-type\n * registry in @semiont/core; formats are validated upstream at the\n * create/yield boundary, so the lookup is strict — no fallback.\n /\n\nimport { MEDIA_TYPES, type SupportedMediaType } from '@semiont/core';\n\n/\n Derive a file:// storage URI from a resource name and media type.\n \n The name is lowercased, runs of non-alphanumeric characters collapse to\n * single hyphens, and leading/trailing hyphens are stripped.\n \n @example\n * deriveStorageUri(\"My Document\", \"text/markdown\") // => \"file://my-document.md\"\n /\nexport function deriveStorageUri(name: string, format: SupportedMediaType): string {\n const slug = name\n .toLowerCase()\n .replace(/[^a-z0-9]+/g, '-')\n .replace(/^-\|-$/g, '');\n return `file://${slug}${MEDIA_TYPES[format].extension}`;\n}\n","/\n PDF Text Layer Extraction\n \n Extracts positioned text from native, non-scanned PDFs using pdfjs-dist.\n * Returns null for scanned/image-only PDFs (no text items).\n \n Coordinates are in PDF point space, originating from the bottom-left.\n * The Y-flip to canvas pixels happens downstream.\n /\n\nimport as pdfjs from 'pdfjs-dist/legacy/build/pdf.mjs';\nimport type { PdfTextLayer, PdfPageInfo, PdfTextItem } from './pdf-text-layer';\n\nexport async function extractPdfTextLayer(\n bytes: Uint8Array \| Buffer\n): Promise<PdfTextLayer \| null> {\n // pdf.js v5 removed the isEvalSupported option; this path only calls\n // getTextContent (no rendering / no PDF functions).\n const loadingTask = pdfjs.getDocument({ data: bytes });\n const doc = await loadingTask.promise;\n\n try {\n const pages: PdfPageInfo[] = [];\n const items: PdfTextItem[] = [];\n let text = '';\n let hasAnyTextItems = false;\n\n for (let pageNum = 1; pageNum <= doc.numPages; pageNum++) {\n const page = await doc.getPage(pageNum);\n const viewport = page.getViewport({ scale: 1.0 });\n const content = await page.getTextContent(); // all text items on the page\n\n pages.push({\n pageNumber: pageNum,\n widthPt: viewport.width,\n heightPt: viewport.height,\n });\n\n for (const item of content.items) {\n if (!('str' in item)) continue; // skip marked-content items (no text)\n\n if (item.str.trim()) {\n hasAnyTextItems = true;\n const start = text.length;\n text += item.str;\n const end = text.length; // range covers only this run's own chars\n\n const [, , , , x, y] = item.transform as number[];\n\n items.push({\n start,\n end,\n page: pageNum,\n x,\n y,\n width: item.width,\n height: item.height,\n });\n\n // Separator AFTER recording the run, so its [start, end) never\n // includes it. pdf.js flags the last run on a line with hasEOL —\n // newline there, space between words otherwise, so reading-order\n // lines don't glue (e.g. \"textsecond\").\n text += item.hasEOL ? 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pageItems] of pages) {\n const lines = groupItemsByLine(pageItems, SAME_LINE_THRESHOLD_PT);\n // Compute one bounding rectangle per line and add it to rects\n for (const lineItems of lines) {\n const x = Math.min(...lineItems.map(i => i.x));\n const right = Math.max(...lineItems.map(i => i.x + i.width));\n const y = Math.min(...lineItems.map(i => i.y));\n const top = Math.max(...lineItems.map(i => i.y + i.height));\n rects.push({page, x, y, width: right - x, height: top - y});\n }\n }\n return rects;\n}\n\nfunction groupItemsByPage(items: PdfTextItem[]): Map<number, PdfTextItem[]> {\n const map = new Map<number, PdfTextItem[]>();\n for (const item of items) {\n const existing = map.get(item.page);\n if (existing) {\n existing.push(item);\n } else {\n map.set(item.page, [item]);\n }\n }\n return map;\n}\n\n\n/\n Sorts text items into lines when their y coordinates are\n * within `sameLineThreshold` points of each other.\n * Sorted top-to-bottom (descending y in PDF space), then 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package/package.json CHANGED Viewed

@@ -1,11 +1,11 @@
 {
   "name": "@semiont/content",
-  "version": "0.5.6",
+  "version": "0.5.8",
   "engines": {
     "node": ">=24.0.0"
   },
   "type": "module",
-  "description": "Content-addressed storage for resource representations",
+  "description": "Working-tree storage for project resources and PDF text-layer extraction",
   "main": "./dist/index.js",
   "types": "./dist/index.d.ts",
   "exports": {
@@ -27,8 +27,8 @@
     "test:coverage": "vitest run --coverage"
   },
   "dependencies": {
-    "@semiont/core": "*",
-    "pdfjs-dist": "^5.7.284"
+    "@semiont/core": "0.5.8",
+    "pdfjs-dist": "^6.0.227"
   },
   "devDependencies": {
     "@vitest/coverage-v8": "^4.1.8",
@@ -42,9 +42,9 @@
   "keywords": [
     "content",
     "storage",
-    "representation",
-    "content-addressed",
-    "deduplication",
+    "working-tree",
+    "checksum",
+    "pdf",
     "semiont"
   ],
   "author": "The AI Alliance",