@theglitchking/semantic-memory 1.0.0

package/dist/chunk-25EIQWXL.js.map

@@ -0,0 +1 @@
+{"version":3,"sources":["../src/core/embedder.ts","../src/core/graph.ts","../src/core/vector.ts","../src/core/search-text.ts"],"sourcesContent":["import { AutoTokenizer } from \"@huggingface/transformers\";\nimport { readFile, writeFile, mkdir, rename, unlink } from \"node:fs/promises\";\nimport { join, dirname } from \"node:path\";\nimport { existsSync, createWriteStream } from \"node:fs\";\nimport { homedir } from \"node:os\";\nimport { Readable } from \"node:stream\";\nimport { pipeline as streamPipeline } from \"node:stream/promises\";\nimport { Worker } from \"node:worker_threads\";\nimport { fileURLToPath } from \"node:url\";\n\n// MiniLM-L6-v2 is the default: ~3 min to index 2,853 chunks on CPU vs ~16 min for nomic.\n// nomic-embed-text-v1.5 gives higher quality embeddings but is much slower on CPU.\nconst DEFAULT_MODEL = \"sentence-transformers/all-MiniLM-L6-v2\";\nconst CACHE_DIR = join(homedir(), \".semantic-sidekick\", \"models\");\n// Default to 1 worker (serial). Worker threads only help on memory-rich machines\n// (each worker loads its own ONNX session). On typical dev machines\n// with <4 GB free RAM, parallel workers cause swap thrashing and are slower.\n// Enable with --workers N when you have sufficient RAM.\nconst DEFAULT_WORKERS = 1;\n// batch=16 is optimal for MiniLM on CPU (short sequences, low padding waste).\n// For larger models (nomic 768d), batch=1 is faster due to padding overhead.\nconst DEFAULT_BATCH_SIZE = 16;\n// Quantized ONNX: faster on CPU but not all models have a quantized variant.\n// MiniLM fp32 is already fast enough; nomic benefits from quantized.\n// Falls back to fp32 automatically if quantized file is not available.\nconst DEFAULT_QUANTIZED = false;\n\n// Full-precision ONNX model subpaths\nconst ONNX_MODEL_PATHS: Record<string, string> = {\n  \"nomic-ai/nomic-embed-text-v1.5\": \"onnx/model.onnx\",\n  \"sentence-transformers/all-MiniLM-L6-v2\": \"onnx/model.onnx\",\n};\n\n// Quantized (int8) ONNX model subpaths — faster on CPU, ~same quality\nconst ONNX_QUANTIZED_MODEL_PATHS: Record<string, string> = {\n  \"nomic-ai/nomic-embed-text-v1.5\": \"onnx/model_quantized.onnx\",\n  \"sentence-transformers/all-MiniLM-L6-v2\": \"onnx/model_quantized.onnx\",\n};\n\ninterface OrtSession {\n  run(feeds: Record<string, unknown>): Promise<Record<string, { data: Float32Array; dims: number[] }>>;\n  inputNames: string[];\n  outputNames: string[];\n}\n\ninterface OrtModule {\n  InferenceSession: {\n    create(path: string, options?: Record<string, unknown>): Promise<OrtSession>;\n  };\n  Tensor: new (type: string, data: ArrayLike<number | bigint>, dims: number[]) => unknown;\n}\n\ntype RuntimeLabel = \"native\" | \"wasm\";\n\nasync function resolveOnnxRuntime(): Promise<{ ort: OrtModule; label: RuntimeLabel }> {\n  try {\n    const ort = await import(\"onnxruntime-node\");\n    return { ort: ort as unknown as OrtModule, label: \"native\" };\n  } catch {\n    const ort = await import(\"onnxruntime-web\");\n    return { ort: ort as unknown as OrtModule, label: \"wasm\" };\n  }\n}\n\n// Download to a process-unique temp file, then atomically rename onto the\n// final path. Two concurrent downloaders won't corrupt each other's partial\n// writes — the worst case is one wasted download (rename is last-writer-wins\n// but each rename installs a complete, valid file). Without this, multiple\n// processes calling Embedder.init() against the same cache (e.g. parallel\n// vitest workers, or multiple semantic-sidekick servers on a fresh install) race\n// on a single shared writeStream and produce a corrupt ONNX file that fails\n// Protobuf parsing on load.\nasync function downloadFile(url: string, destPath: string): Promise<void> {\n  const response = await fetch(url);\n  if (!response.ok) throw new Error(`Download failed (${response.status}): ${url}`);\n  if (!response.body) throw new Error(`No response body: ${url}`);\n  const tempPath = `${destPath}.${process.pid}.${Date.now()}.tmp`;\n  try {\n    const fileStream = createWriteStream(tempPath);\n    await streamPipeline(Readable.fromWeb(response.body as never), fileStream);\n    await rename(tempPath, destPath);\n  } catch (err) {\n    try { await unlink(tempPath); } catch { /* temp may not exist */ }\n    throw err;\n  }\n}\n\nexport class Embedder {\n  private model: string;\n  private session: OrtSession | null = null;\n  private tokenizer: Awaited<ReturnType<typeof AutoTokenizer.from_pretrained>> | null = null;\n  private ort: OrtModule | null = null;\n  private dimensions = 0;\n  private runtimeLabel: RuntimeLabel = \"wasm\";\n  private initialized = false;\n  private numWorkers: number;\n  private batchSize: number;\n  private quantized: boolean;\n  private modelPath = \"\";\n\n  constructor(\n    model: string = DEFAULT_MODEL,\n    numWorkers: number = DEFAULT_WORKERS,\n    batchSize: number = DEFAULT_BATCH_SIZE,\n    quantized: boolean = DEFAULT_QUANTIZED\n  ) {\n    this.model = model;\n    this.numWorkers = numWorkers;\n    this.batchSize = batchSize;\n    this.quantized = quantized;\n  }\n\n  async init(): Promise<void> {\n    if (this.initialized) return;\n\n    const modelDir = join(CACHE_DIR, this.model.replace(/\\//g, \"--\"));\n    await mkdir(modelDir, { recursive: true });\n\n    // Resolve ONNX runtime (native C++ or WASM fallback)\n    const { ort, label } = await resolveOnnxRuntime();\n    this.ort = ort;\n    this.runtimeLabel = label;\n\n    // Download ONNX model if not cached. Tries quantized first if requested,\n    // falls back to fp32 if the quantized file is not available for this model.\n    let useQuantized = this.quantized;\n    const modelFileName = useQuantized ? \"model_quantized.onnx\" : \"model.onnx\";\n    this.modelPath = join(modelDir, modelFileName);\n    const modelPath = this.modelPath;\n    if (!existsSync(modelPath)) {\n      const pathMap = useQuantized ? ONNX_QUANTIZED_MODEL_PATHS : ONNX_MODEL_PATHS;\n      const onnxSubpath = pathMap[this.model] ?? (useQuantized ? \"onnx/model_quantized.onnx\" : \"onnx/model.onnx\");\n      const url = `https://huggingface.co/${this.model}/resolve/main/${onnxSubpath}`;\n      process.stderr.write(`Downloading ONNX model: ${this.model} (${useQuantized ? \"quantized\" : \"fp32\"})...\\n`);\n      try {\n        await downloadFile(url, modelPath);\n      } catch (err: any) {\n        if (useQuantized && err?.message?.includes(\"404\")) {\n          // Quantized not available for this model — fall back to fp32\n          process.stderr.write(`Quantized model not available, falling back to fp32\\n`);\n          useQuantized = false;\n          this.modelPath = join(modelDir, \"model.onnx\");\n          const fp32Subpath = ONNX_MODEL_PATHS[this.model] ?? \"onnx/model.onnx\";\n          const fp32Url = `https://huggingface.co/${this.model}/resolve/main/${fp32Subpath}`;\n          process.stderr.write(`Downloading ONNX model: ${this.model} (fp32)...\\n`);\n          await downloadFile(fp32Url, this.modelPath);\n        } else {\n          throw err;\n        }\n      }\n      process.stderr.write(`Model downloaded to ${modelDir}\\n`);\n    }\n    // Load tokenizer (uses HF transformers tokenizer infrastructure)\n    this.tokenizer = await AutoTokenizer.from_pretrained(this.model, {\n      cache_dir: CACHE_DIR,\n    });\n\n    // Create ONNX inference session (use this.modelPath — may have been updated by fallback)\n    this.session = await ort.InferenceSession.create(this.modelPath, {\n      executionProviders: [label === \"native\" ? \"cpu\" : \"wasm\"],\n    });\n\n    // Determine dimensions from a test embedding\n    const test = await this.embed(\"test\");\n    this.dimensions = test.length;\n    this.initialized = true;\n\n    const modelShort = this.model.split(\"/\").pop() ?? this.model;\n    process.stderr.write(`Embedder ready (${modelShort}, ${label}, ${this.dimensions}d, batch=${this.batchSize})\\n`);\n  }\n\n  async embed(text: string): Promise<Float32Array> {\n    if (!this.session || !this.tokenizer || !this.ort)\n      throw new Error(\"Embedder not initialized. Call init() first.\");\n\n    // Tokenize\n    const encoded = await this.tokenizer(text, {\n      padding: true,\n      truncation: true,\n      max_length: 512,\n      return_tensor: false,\n    });\n\n    const inputIdsRaw: number[] = Array.from(encoded.input_ids.data ?? encoded.input_ids);\n    const attentionMaskRaw: number[] = Array.from(encoded.attention_mask.data ?? encoded.attention_mask);\n    const seqLen = inputIdsRaw.length;\n\n    // Build ONNX input tensors (most models expect int64)\n    const inputIds = new this.ort.Tensor(\n      \"int64\",\n      BigInt64Array.from(inputIdsRaw.map(BigInt)),\n      [1, seqLen]\n    );\n    const attentionMask = new this.ort.Tensor(\n      \"int64\",\n      BigInt64Array.from(attentionMaskRaw.map(BigInt)),\n      [1, seqLen]\n    );\n\n    const feeds: Record<string, unknown> = { input_ids: inputIds, attention_mask: attentionMask };\n\n    // Some models need token_type_ids\n    if (this.session.inputNames.includes(\"token_type_ids\")) {\n      feeds.token_type_ids = new this.ort.Tensor(\n        \"int64\",\n        new BigInt64Array(seqLen),\n        [1, seqLen]\n      );\n    }\n\n    // Run inference\n    const output = await this.session.run(feeds);\n    const outputTensor = output[this.session.outputNames[0]];\n    const hiddenSize = outputTensor.dims[outputTensor.dims.length - 1];\n\n    // Mean pooling with attention mask + L2 normalization\n    return this.meanPoolAndNormalize(outputTensor.data, attentionMaskRaw, seqLen, hiddenSize);\n  }\n\n  private meanPoolAndNormalize(\n    embeddings: Float32Array,\n    attentionMask: number[],\n    seqLen: number,\n    hiddenSize: number\n  ): Float32Array {\n    const result = new Float32Array(hiddenSize);\n    let maskSum = 0;\n\n    for (let t = 0; t < seqLen; t++) {\n      const mask = attentionMask[t];\n      maskSum += mask;\n      const offset = t * hiddenSize;\n      for (let d = 0; d < hiddenSize; d++) {\n        result[d] += embeddings[offset + d] * mask;\n      }\n    }\n\n    if (maskSum > 0) {\n      for (let d = 0; d < hiddenSize; d++) result[d] /= maskSum;\n    }\n\n    // L2 normalize\n    let norm = 0;\n    for (let d = 0; d < hiddenSize; d++) norm += result[d] * result[d];\n    norm = Math.sqrt(norm);\n    if (norm > 0) {\n      for (let d = 0; d < hiddenSize; d++) result[d] /= norm;\n    }\n\n    return result;\n  }\n\n  // Mean pool + L2 normalize the output of a batched ONNX forward pass.\n  // outputData: flat Float32Array of shape [batchSize, seqLen, hiddenSize]\n  // maskData:   flat number[] of shape [batchSize, seqLen]\n  private meanPoolAndNormalizeMany(\n    outputData: Float32Array,\n    maskData: number[],\n    batchSize: number,\n    seqLen: number,\n    hiddenSize: number\n  ): Float32Array[] {\n    const results: Float32Array[] = [];\n    for (let b = 0; b < batchSize; b++) {\n      const result = new Float32Array(hiddenSize);\n      let maskSum = 0;\n      for (let t = 0; t < seqLen; t++) {\n        const mask = maskData[b * seqLen + t];\n        maskSum += mask;\n        const offset = (b * seqLen + t) * hiddenSize;\n        for (let d = 0; d < hiddenSize; d++) {\n          result[d] += outputData[offset + d] * mask;\n        }\n      }\n      if (maskSum > 0) {\n        for (let d = 0; d < hiddenSize; d++) result[d] /= maskSum;\n      }\n      // L2 normalize\n      let norm = 0;\n      for (let d = 0; d < hiddenSize; d++) norm += result[d] * result[d];\n      norm = Math.sqrt(norm);\n      if (norm > 0) {\n        for (let d = 0; d < hiddenSize; d++) result[d] /= norm;\n      }\n      results.push(result);\n    }\n    return results;\n  }\n\n  // Embed a sub-batch of texts (length <= batchSize) in a single ONNX forward pass.\n  //\n  // Tokenizes each text individually (well-defined output format for all HF versions),\n  // then manually pads to the longest sequence in the batch and builds a [n, seqLen]\n  // tensor for one ONNX call. The speedup is from batching the ONNX inference —\n  // individual tokenization is negligible (<1ms each).\n  private async embedSubBatch(texts: string[]): Promise<Float32Array[]> {\n    if (!this.session || !this.tokenizer || !this.ort)\n      throw new Error(\"Embedder not initialized. Call init() first.\");\n\n    const n = texts.length;\n\n    // Tokenize each text individually — avoids ambiguous batch tokenizer output format\n    const encodings = await Promise.all(\n      texts.map((text) =>\n        this.tokenizer!(text, {\n          padding: false,\n          truncation: true,\n          max_length: 512,\n          return_tensor: false,\n        })\n      )\n    );\n\n    // Extract flat token arrays and find max sequence length for this batch\n    const tokenized = encodings.map((enc) => ({\n      ids: Array.from(enc.input_ids.data ?? enc.input_ids) as number[],\n      mask: Array.from(enc.attention_mask.data ?? enc.attention_mask) as number[],\n    }));\n    const seqLen = Math.max(...tokenized.map((t) => t.ids.length));\n\n    // Build flat padded tensors [n * seqLen] — pad with 0 (PAD token, zero attention)\n    const flatIds = new BigInt64Array(n * seqLen);\n    const flatMask = new BigInt64Array(n * seqLen);\n    const flatMaskNums = new Array<number>(n * seqLen).fill(0);\n\n    for (let i = 0; i < n; i++) {\n      const { ids, mask } = tokenized[i];\n      for (let j = 0; j < ids.length; j++) {\n        flatIds[i * seqLen + j] = BigInt(ids[j]);\n        flatMask[i * seqLen + j] = BigInt(mask[j]);\n        flatMaskNums[i * seqLen + j] = mask[j];\n      }\n      // Positions beyond ids.length remain 0 (padding)\n    }\n\n    // Build batched ONNX tensors [n, seqLen]\n    const inputIds = new this.ort.Tensor(\"int64\", flatIds, [n, seqLen]);\n    const attentionMask = new this.ort.Tensor(\"int64\", flatMask, [n, seqLen]);\n\n    const feeds: Record<string, unknown> = { input_ids: inputIds, attention_mask: attentionMask };\n\n    if (this.session.inputNames.includes(\"token_type_ids\")) {\n      feeds.token_type_ids = new this.ort.Tensor(\n        \"int64\",\n        new BigInt64Array(n * seqLen),\n        [n, seqLen]\n      );\n    }\n\n    // Single forward pass → output shape [n, seqLen, hiddenSize]\n    const output = await this.session.run(feeds);\n    const outputTensor = output[this.session.outputNames[0]];\n    const hiddenSize = outputTensor.dims[outputTensor.dims.length - 1];\n\n    return this.meanPoolAndNormalizeMany(\n      outputTensor.data,\n      flatMaskNums,\n      n,\n      seqLen,\n      hiddenSize\n    );\n  }\n\n  async embedBatch(\n    texts: string[],\n    onProgress?: (embedded: number, total: number, subBatch?: Float32Array[]) => Promise<void> | void\n  ): Promise<Float32Array[]> {\n    // Workers path (disabled by default; kept for --workers N users)\n    if (this.numWorkers > 1 && texts.length >= this.numWorkers * 2) {\n      return this.embedBatchParallel(texts, onProgress);\n    }\n\n    // True batched inference: slice into sub-batches and run one ONNX call each\n    const results: Float32Array[] = [];\n    for (let i = 0; i < texts.length; i += this.batchSize) {\n      const subBatch = texts.slice(i, i + this.batchSize);\n      const embeddings = await this.embedSubBatch(subBatch);\n      results.push(...embeddings);\n      await onProgress?.(Math.min(i + subBatch.length, texts.length), texts.length, embeddings);\n    }\n    return results;\n  }\n\n  private async embedBatchParallel(\n    texts: string[],\n    onProgress?: (embedded: number, total: number, subBatch?: Float32Array[]) => Promise<void> | void\n  ): Promise<Float32Array[]> {\n    // Resolve worker script path. With tsup splitting, embedder code may land\n    // in a top-level chunk (dist/chunk-*.js) rather than dist/core/index.js,\n    // so we try two locations: adjacent to this chunk, and dist/core/ relative\n    // to the package root (two levels up from a dist/ chunk file).\n    const thisDir = dirname(fileURLToPath(import.meta.url));\n    let workerPath = join(thisDir, \"embed-worker.js\");\n    if (!existsSync(workerPath)) {\n      // Chunk file at dist/ level — worker is in dist/core/\n      workerPath = join(thisDir, \"core\", \"embed-worker.js\");\n    }\n\n    if (!existsSync(workerPath)) {\n      // Fallback to serial batched if worker script not found\n      process.stderr.write(\"Worker script not found, falling back to batched embedding\\n\");\n      return this.embedBatch(texts, onProgress);\n    }\n\n    // Split texts into chunks for each worker\n    const chunkSize = Math.ceil(texts.length / this.numWorkers);\n    const chunks: { texts: string[]; startIndex: number }[] = [];\n    for (let i = 0; i < texts.length; i += chunkSize) {\n      chunks.push({ texts: texts.slice(i, i + chunkSize), startIndex: i });\n    }\n\n    const allResults = new Array<Float32Array>(texts.length);\n    let totalDone = 0;\n\n    const workerPromises = chunks.map((chunk) => {\n      return new Promise<void>((resolve, reject) => {\n        const worker = new Worker(workerPath, {\n          workerData: {\n            modelPath: this.modelPath,\n            modelName: this.model,\n            cacheDir: CACHE_DIR,\n            runtimeLabel: this.runtimeLabel,\n            batchSize: this.batchSize,\n          },\n        });\n\n        worker.on(\"message\", (msg: any) => {\n          if (msg.type === \"ready\") {\n            worker.postMessage({ type: \"embed\", texts: chunk.texts, startIndex: chunk.startIndex });\n          } else if (msg.type === \"progress\") {\n            totalDone++;\n            onProgress?.(totalDone, texts.length);\n          } else if (msg.type === \"result\") {\n            for (let i = 0; i < msg.embeddings.length; i++) {\n              allResults[chunk.startIndex + i] = new Float32Array(msg.embeddings[i]);\n            }\n            worker.terminate();\n            resolve();\n          } else if (msg.type === \"error\") {\n            worker.terminate();\n            reject(new Error(msg.error));\n          }\n        });\n\n        worker.on(\"error\", (err) => {\n          worker.terminate();\n          reject(err);\n        });\n      });\n    });\n\n    await Promise.all(workerPromises);\n    return allResults;\n  }\n\n  getDimensions(): number {\n    return this.dimensions;\n  }\n\n  getModel(): string {\n    return this.model;\n  }\n\n  getRuntime(): RuntimeLabel {\n    return this.runtimeLabel;\n  }\n\n  async saveEmbeddings(\n    embeddings: Map<string, Float32Array>,\n    indexPath: string\n  ): Promise<void> {\n    const entries: Array<{ key: string; data: number[] }> = [];\n    for (const [key, vec] of embeddings) {\n      entries.push({ key, data: Array.from(vec) });\n    }\n    await writeFile(join(indexPath, \"embeddings.json\"), JSON.stringify(entries));\n  }\n\n  async loadEmbeddings(\n    indexPath: string\n  ): Promise<Map<string, Float32Array>> {\n    const filePath = join(indexPath, \"embeddings.json\");\n    if (!existsSync(filePath)) return new Map();\n\n    const raw = await readFile(filePath, \"utf-8\");\n    const entries: Array<{ key: string; data: number[] }> = JSON.parse(raw);\n    const map = new Map<string, Float32Array>();\n    for (const entry of entries) {\n      map.set(entry.key, new Float32Array(entry.data));\n    }\n    return map;\n  }\n}\n","import Graph from \"graphology\";\nimport { bfsFromNode } from \"graphology-traversal\";\nimport { bidirectional } from \"graphology-shortest-path\";\nimport type { IndexedDocument, GraphNode, GraphEdge, GraphStats } from \"./types.js\";\nimport { readFile, writeFile } from \"node:fs/promises\";\nimport { join } from \"node:path\";\nimport { existsSync } from \"node:fs\";\n\n/**\n * Tags shared by more than this many docs are too generic to be meaningful\n * graph edges (e.g. \"api\", \"testing\"). Only specific/rare tags create edges.\n * Docs without frontmatter are unaffected — their inline #tags still participate\n * but only if those tags are specific enough to pass this threshold.\n */\nconst TAG_EDGE_MAX_DOCS = 15;\n\nexport class GraphBuilder {\n  private graph: Graph;\n\n  constructor() {\n    this.graph = new Graph({ type: \"directed\", multi: false });\n  }\n\n  buildFromDocuments(documents: IndexedDocument[]): void {\n    this.graph.clear();\n\n    // Add nodes — store optional metadata fields when present\n    for (const doc of documents) {\n      this.graph.addNode(doc.path, {\n        title: doc.title,\n        tags: doc.tags,\n        ...(doc.status !== undefined && { status: doc.status }),\n        ...(doc.loadPriority !== undefined && { loadPriority: doc.loadPriority }),\n      });\n    }\n\n    const pathLookup = new Map<string, string>();\n    for (const doc of documents) {\n      const nameNoExt = doc.path.replace(/\\.md$/, \"\");\n      const basename = nameNoExt.split(\"/\").pop()!;\n      pathLookup.set(basename.toLowerCase(), doc.path);\n      pathLookup.set(nameNoExt.toLowerCase(), doc.path);\n    }\n\n    // Add wikilink edges (weight 1.0)\n    for (const doc of documents) {\n      for (const link of doc.wikilinks) {\n        const target = pathLookup.get(link.toLowerCase());\n        if (target && target !== doc.path && !this.graph.hasEdge(doc.path, target)) {\n          this.graph.addEdge(doc.path, target, { type: \"wikilink\", weight: 1.0 });\n        }\n      }\n    }\n\n    // Add related_docs edges (weight 1.0) — only present when frontmatter has related_docs\n    // Falls back gracefully: docs without this field are simply skipped\n    for (const doc of documents) {\n      if (!doc.relatedDocs?.length) continue;\n      for (const ref of doc.relatedDocs) {\n        // Try full normalized path first, then basename — same strategy as wikilinks\n        const normalized = ref.replace(/\\.md$/, \"\").toLowerCase();\n        const base = normalized.split(\"/\").pop()!;\n        const target = pathLookup.get(normalized) ?? pathLookup.get(base);\n        if (target && target !== doc.path && !this.graph.hasEdge(doc.path, target)) {\n          this.graph.addEdge(doc.path, target, { type: \"related\", weight: 1.0 });\n        }\n      }\n    }\n\n    // Add tag-based edges (weight 0.5) — capped at TAG_EDGE_MAX_DOCS per tag.\n    // Generic tags shared by many docs (e.g. \"api\", \"testing\") create noise;\n    // only specific tags (e.g. \"qdrant\", \"celery\") create meaningful connections.\n    const tagToNotes = new Map<string, string[]>();\n    for (const doc of documents) {\n      for (const tag of doc.tags) {\n        const notes = tagToNotes.get(tag) ?? [];\n        notes.push(doc.path);\n        tagToNotes.set(tag, notes);\n      }\n    }\n\n    for (const [, notes] of tagToNotes) {\n      if (notes.length >= TAG_EDGE_MAX_DOCS) continue; // too generic — skip\n      for (let i = 0; i < notes.length; i++) {\n        for (let j = i + 1; j < notes.length; j++) {\n          if (!this.graph.hasEdge(notes[i], notes[j])) {\n            this.graph.addEdge(notes[i], notes[j], { type: \"tag\", weight: 0.5 });\n          }\n          if (!this.graph.hasEdge(notes[j], notes[i])) {\n            this.graph.addEdge(notes[j], notes[i], { type: \"tag\", weight: 0.5 });\n          }\n        }\n      }\n    }\n  }\n\n  backlinks(notePath: string): GraphNode[] {\n    if (!this.graph.hasNode(notePath)) return [];\n    return this.graph.inNeighbors(notePath).map((n) => this.nodeToGraphNode(n));\n  }\n\n  forwardlinks(notePath: string): GraphNode[] {\n    if (!this.graph.hasNode(notePath)) return [];\n    return this.graph.outNeighbors(notePath).map((n) => this.nodeToGraphNode(n));\n  }\n\n  findPath(from: string, to: string): string[] | null {\n    if (!this.graph.hasNode(from) || !this.graph.hasNode(to)) return null;\n    const path = bidirectional(this.graph, from, to);\n    return path;\n  }\n\n  searchGraph(concept: string, maxDepth = 2, limit = 20): GraphNode[] {\n    const lc = concept.toLowerCase();\n\n    const directMatches = new Set<string>(\n      this.graph.nodes().filter((n) => {\n        const attrs = this.graph.getNodeAttributes(n);\n        const title = typeof attrs.title === \"string\" ? attrs.title : String(attrs.title ?? \"\");\n        return (\n          n.toLowerCase().includes(lc) ||\n          title.toLowerCase().includes(lc) ||\n          (attrs.tags as string[] | undefined)?.some((t) => t.toLowerCase().includes(lc))\n        );\n      })\n    );\n\n    const visited = new Set<string>();\n    for (const start of directMatches) {\n      bfsFromNode(this.graph, start, (_node, _attr, depth) => {\n        if (visited.size >= limit * 3) return true; // gather 3x limit before ranking\n        visited.add(_node);\n        return depth >= maxDepth;\n      });\n    }\n\n    // Sort: direct matches first, then by loadPriority desc, then by degree desc\n    // deprecated/archived nodes sort to the end\n    const ranked = [...visited].sort((a, b) => {\n      const aAttrs = this.graph.getNodeAttributes(a);\n      const bAttrs = this.graph.getNodeAttributes(b);\n      const aDeprecated = aAttrs.status === \"deprecated\" || aAttrs.status === \"archived\" ? 1 : 0;\n      const bDeprecated = bAttrs.status === \"deprecated\" || bAttrs.status === \"archived\" ? 1 : 0;\n      if (aDeprecated !== bDeprecated) return aDeprecated - bDeprecated;\n      const aDirect = directMatches.has(a) ? 0 : 1;\n      const bDirect = directMatches.has(b) ? 0 : 1;\n      if (aDirect !== bDirect) return aDirect - bDirect;\n      const aPriority = (aAttrs.loadPriority as number | undefined) ?? 5;\n      const bPriority = (bAttrs.loadPriority as number | undefined) ?? 5;\n      if (aPriority !== bPriority) return bPriority - aPriority;\n      return this.graph.degree(b) - this.graph.degree(a);\n    });\n\n    return ranked.slice(0, limit).map((n) => this.nodeToGraphNode(n));\n  }\n\n  statistics(): GraphStats {\n    const nodes = this.graph.order;\n    const edges = this.graph.size;\n    const orphans = this.graph.nodes().filter(\n      (n) => this.graph.degree(n) === 0\n    );\n\n    const connections = this.graph.nodes().map((n) => ({\n      path: n,\n      connections: this.graph.degree(n),\n    }));\n    connections.sort((a, b) => b.connections - a.connections);\n\n    const maxPossibleEdges = nodes * (nodes - 1);\n    const density = maxPossibleEdges > 0 ? edges / maxPossibleEdges : 0;\n\n    return {\n      totalNodes: nodes,\n      totalEdges: edges,\n      orphanCount: orphans.length,\n      mostConnected: connections.slice(0, 10),\n      density,\n    };\n  }\n\n  private nodeToGraphNode(nodePath: string): GraphNode {\n    const attrs = this.graph.getNodeAttributes(nodePath);\n    return {\n      path: nodePath,\n      title: typeof attrs.title === \"string\" ? attrs.title : nodePath,\n      tags: (attrs.tags as string[]) || [],\n      linkCount: this.graph.outDegree(nodePath),\n      backlinkCount: this.graph.inDegree(nodePath),\n      ...(attrs.loadPriority !== undefined && { loadPriority: attrs.loadPriority as number }),\n      ...(attrs.status !== undefined && { status: attrs.status as string }),\n    };\n  }\n\n  async save(indexPath: string): Promise<void> {\n    const data = this.graph.export();\n    await writeFile(join(indexPath, \"graph.json\"), JSON.stringify(data));\n  }\n\n  async load(indexPath: string): Promise<boolean> {\n    const filePath = join(indexPath, \"graph.json\");\n    if (!existsSync(filePath)) return false;\n\n    const raw = await readFile(filePath, \"utf-8\");\n    const data = JSON.parse(raw);\n    this.graph.import(data);\n    return true;\n  }\n\n  getGraph(): Graph {\n    return this.graph;\n  }\n}\n","import hnswlib from \"hnswlib-node\";\nconst { HierarchicalNSW } = hnswlib;\nimport { readFile, writeFile } from \"node:fs/promises\";\nimport { join } from \"node:path\";\nimport { existsSync } from \"node:fs\";\nimport type { SearchResult } from \"./types.js\";\n\ninterface ChunkMeta {\n  docPath: string;\n  chunkIndex: number;\n  text: string;\n}\n\nexport class VectorIndex {\n  private index: InstanceType<typeof HierarchicalNSW> | null = null;\n  private dimensions: number;\n  private chunkMeta: ChunkMeta[] = [];\n\n  constructor(dimensions: number) {\n    this.dimensions = dimensions;\n  }\n\n  build(\n    embeddings: Float32Array[],\n    meta: ChunkMeta[]\n  ): void {\n    if (embeddings.length === 0) {\n      this.index = null;\n      this.chunkMeta = [];\n      return;\n    }\n\n    this.index = new HierarchicalNSW(\"cosine\", this.dimensions);\n    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}\n\n    return results;\n  }\n\n  async save(indexPath: string): Promise<void> {\n    if (!this.index) return;\n\n    this.index.writeIndexSync(join(indexPath, \"hnsw.bin\"));\n    await writeFile(\n      join(indexPath, \"hnsw-meta.json\"),\n      JSON.stringify(this.chunkMeta)\n    );\n  }\n\n  async load(indexPath: string): Promise<boolean> {\n    const hnswPath = join(indexPath, \"hnsw.bin\");\n    const metaPath = join(indexPath, \"hnsw-meta.json\");\n\n    if (!existsSync(hnswPath) || !existsSync(metaPath)) return false;\n\n    const raw = await readFile(metaPath, \"utf-8\");\n    this.chunkMeta = JSON.parse(raw);\n\n    this.index = new HierarchicalNSW(\"cosine\", this.dimensions);\n    this.index.initIndex(this.chunkMeta.length);\n    this.index.readIndexSync(hnswPath);\n\n    return true;\n  }\n\n  getChunkMeta(): ChunkMeta[] {\n    return this.chunkMeta;\n  }\n}\n","import type { IndexedDocument, SearchResult, SearchTextOptions } from \"./types.js\";\nimport { minimatch } 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package/dist/chunk-CAN2GWUG.js

@@ -0,0 +1,88 @@
+import {
+  loadSchema,
+  validateNote
+} from "./chunk-E2Z4J4MK.js";
+
+// src/core/lint.ts
+import { readFile } from "fs/promises";
+import { basename, join } from "path";
+import { glob } from "glob";
+import matter from "gray-matter";
+async function lintVault(notesPath, opts = {}) {
+  const schema = opts.schemaOverride ?? await loadSchema(notesPath);
+  const files = await glob(opts.pathGlob ?? "**/*.md", {
+    cwd: notesPath,
+    ignore: ["node_modules/**", ".semantic-sidekick-index/**", "vault.schema.yml"]
+  });
+  const findings = [];
+  const knownNames = /* @__PURE__ */ new Set();
+  const rawByPath = /* @__PURE__ */ new Map();
+  for (const rel of files) {
+    try {
+      const raw = await readFile(join(notesPath, rel), "utf-8");
+      rawByPath.set(rel, raw);
+      knownNames.add(basename(rel).replace(/\.md$/, ""));
+    } catch {
+    }
+  }
+  for (const [rel, raw] of rawByPath) {
+    findings.push(...validateNote(rel, raw, schema, { todayIso: opts.todayIso }));
+    findings.push(...findBrokenLinks(rel, raw, knownNames));
+  }
+  const byRule = {
+    schema_violations: findings.filter((f) => f.rule === "schema_violations"),
+    missing_provenance: findings.filter((f) => f.rule === "missing_provenance"),
+    stale: findings.filter((f) => f.rule === "stale"),
+    broken_links: findings.filter((f) => f.rule === "broken_links")
+  };
+  const errors = findings.filter((f) => f.severity === "error").length;
+  const warnings = findings.filter((f) => f.severity === "warn").length;
+  return {
+    schemaPath: join(notesPath, "vault.schema.yml"),
+    findings,
+    byRule,
+    counts: { errors, warnings, filesLinted: files.length }
+  };
+}
+function findBrokenLinks(relPath, rawFileContent, knownNames) {
+  const { content } = matter(rawFileContent);
+  const findings = [];
+  const stripped = content.replace(/```[\s\S]*?```/g, "").replace(/`[^`]+`/g, "");
+  const re = /\[\[([^\]\|]+)(?:\|[^\]]+)?\]\]/g;
+  const seen = /* @__PURE__ */ new Set();
+  let m;
+  while ((m = re.exec(stripped)) !== null) {
+    const target = m[1].trim().split("#")[0].split("/").pop().replace(/\.md$/, "");
+    if (seen.has(target)) continue;
+    seen.add(target);
+    if (!knownNames.has(target)) {
+      findings.push({
+        path: relPath,
+        rule: "broken_links",
+        severity: "warn",
+        message: `wikilink [[${target}]] has no matching note`
+      });
+    }
+  }
+  return findings;
+}
+function formatLintReport(report, opts = {}) {
+  const target = opts.rule ? report.byRule[opts.rule] : report.findings;
+  if (target.length === 0) {
+    return `clean: 0 findings across ${report.counts.filesLinted} files`;
+  }
+  const lines = [
+    `${target.length} finding${target.length === 1 ? "" : "s"} (errors=${report.counts.errors}, warnings=${report.counts.warnings}, files=${report.counts.filesLinted})`,
+    ""
+  ];
+  for (const f of target) {
+    lines.push(`[${f.severity}] ${f.rule}: ${f.path} \u2014 ${f.message}`);
+  }
+  return lines.join("\n");
+}
+
+export {
+  lintVault,
+  formatLintReport
+};
+//# sourceMappingURL=chunk-CAN2GWUG.js.map

package/dist/chunk-CAN2GWUG.js.map

@@ -0,0 +1 @@
+{"version":3,"sources":["../src/core/lint.ts"],"sourcesContent":["import { readFile } from \"node:fs/promises\";\nimport { basename, join } from \"node:path\";\nimport { glob } from \"glob\";\nimport matter from \"gray-matter\";\nimport { loadSchema, validateNote, type LintFinding, type VaultSchema } from \"./schema.js\";\n\nexport interface LintReport {\n  schemaPath: string;\n  findings: LintFinding[];\n  byRule: {\n    schema_violations: LintFinding[];\n    missing_provenance: LintFinding[];\n    stale: LintFinding[];\n    broken_links: LintFinding[];\n  };\n  counts: {\n    errors: number;\n    warnings: number;\n    filesLinted: number;\n  };\n}\n\nexport async function lintVault(\n  notesPath: string,\n  opts: { pathGlob?: string; schemaOverride?: VaultSchema; todayIso?: string } = {}\n): Promise<LintReport> {\n  const schema = opts.schemaOverride ?? (await loadSchema(notesPath));\n  const files = await glob(opts.pathGlob ?? \"**/*.md\", {\n    cwd: notesPath,\n    ignore: [\"node_modules/**\", \".semantic-sidekick-index/**\", \"vault.schema.yml\"],\n  });\n\n  const findings: LintFinding[] = [];\n  // Build known-note set first, to make broken-link detection O(1) per link.\n  const knownNames = new Set<string>();\n  const rawByPath = new Map<string, string>();\n  for (const rel of files) {\n    try {\n      const raw = await readFile(join(notesPath, rel), \"utf-8\");\n      rawByPath.set(rel, raw);\n      // Wikilink names match on basename-without-ext (obsidian-style)\n      knownNames.add(basename(rel).replace(/\\.md$/, \"\"));\n    } catch {\n      /* skip */\n    }\n  }\n\n  for (const [rel, raw] of rawByPath) {\n    findings.push(...validateNote(rel, raw, schema, { todayIso: opts.todayIso }));\n    findings.push(...findBrokenLinks(rel, raw, knownNames));\n  }\n\n  const byRule = {\n    schema_violations: findings.filter((f) => f.rule === \"schema_violations\"),\n    missing_provenance: findings.filter((f) => f.rule === \"missing_provenance\"),\n    stale: findings.filter((f) => f.rule === \"stale\"),\n    broken_links: findings.filter((f) => f.rule === \"broken_links\"),\n  };\n  const errors = findings.filter((f) => f.severity === \"error\").length;\n  const warnings = findings.filter((f) => f.severity === \"warn\").length;\n\n  return {\n    schemaPath: join(notesPath, \"vault.schema.yml\"),\n    findings,\n    byRule,\n    counts: { errors, warnings, filesLinted: files.length },\n  };\n}\n\nfunction findBrokenLinks(\n  relPath: string,\n  rawFileContent: string,\n  knownNames: Set<string>\n): LintFinding[] {\n  const { content } = matter(rawFileContent);\n  const findings: LintFinding[] = [];\n  // Match [[target]] and [[target|alias]] — skip fenced code and inline code.\n  const stripped = content\n    .replace(/```[\\s\\S]*?```/g, \"\")\n    .replace(/`[^`]+`/g, \"\");\n  const re = /\\[\\[([^\\]\\|]+)(?:\\|[^\\]]+)?\\]\\]/g;\n  const seen = new Set<string>();\n  let m: RegExpExecArray | null;\n  while ((m = re.exec(stripped)) !== null) {\n    const target = m[1].trim().split(\"#\")[0].split(\"/\").pop()!.replace(/\\.md$/, \"\");\n    if (seen.has(target)) continue;\n    seen.add(target);\n    if (!knownNames.has(target)) {\n      findings.push({\n        path: relPath,\n        rule: \"broken_links\",\n        severity: \"warn\",\n        message: `wikilink [[${target}]] has no matching note`,\n      });\n    }\n  }\n  return findings;\n}\n\nexport function formatLintReport(report: LintReport, opts: { rule?: keyof LintReport[\"byRule\"] } = {}): string {\n  const target = opts.rule ? report.byRule[opts.rule] : report.findings;\n  if (target.length === 0) {\n    return `clean: 0 findings across ${report.counts.filesLinted} files`;\n  }\n  const lines = [\n    `${target.length} finding${target.length === 1 ? \"\" : \"s\"} (errors=${report.counts.errors}, warnings=${report.counts.warnings}, files=${report.counts.filesLinted})`,\n    \"\",\n  ];\n  for (const f of target) {\n    lines.push(`[${f.severity}] ${f.rule}: ${f.path} — ${f.message}`);\n  }\n  return lines.join(\"\\n\");\n}\n"],"mappings":";;;;;;AAAA,SAAS,gBAAgB;AACzB,SAAS,UAAU,YAAY;AAC/B,SAAS,YAAY;AACrB,OAAO,YAAY;AAmBnB,eAAsB,UACpB,WACA,OAA+E,CAAC,GAC3D;AACrB,QAAM,SAAS,KAAK,kBAAmB,MAAM,WAAW,SAAS;AACjE,QAAM,QAAQ,MAAM,KAAK,KAAK,YAAY,WAAW;AAAA,IACnD,KAAK;AAAA,IACL,QAAQ,CAAC,mBAAmB,+BAA+B,kBAAkB;AAAA,EAC/E,CAAC;AAED,QAAM,WAA0B,CAAC;AAEjC,QAAM,aAAa,oBAAI,IAAY;AACnC,QAAM,YAAY,oBAAI,IAAoB;AAC1C,aAAW,OAAO,OAAO;AACvB,QAAI;AACF,YAAM,MAAM,MAAM,SAAS,KAAK,WAAW,GAAG,GAAG,OAAO;AACxD,gBAAU,IAAI,KAAK,GAAG;AAEtB,iBAAW,IAAI,SAAS,GAAG,EAAE,QAAQ,SAAS,EAAE,CAAC;AAAA,IACnD,QAAQ;AAAA,IAER;AAAA,EACF;AAEA,aAAW,CAAC,KAAK,GAAG,KAAK,WAAW;AAClC,aAAS,KAAK,GAAG,aAAa,KAAK,KAAK,QAAQ,EAAE,UAAU,KAAK,SAAS,CAAC,CAAC;AAC5E,aAAS,KAAK,GAAG,gBAAgB,KAAK,KAAK,UAAU,CAAC;AAAA,EACxD;AAEA,QAAM,SAAS;AAAA,IACb,mBAAmB,SAAS,OAAO,CAAC,MAAM,EAAE,SAAS,mBAAmB;AAAA,IACxE,oBAAoB,SAAS,OAAO,CAAC,MAAM,EAAE,SAAS,oBAAoB;AAAA,IAC1E,OAAO,SAAS,OAAO,CAAC,MAAM,EAAE,SAAS,OAAO;AAAA,IAChD,cAAc,SAAS,OAAO,CAAC,MAAM,EAAE,SAAS,cAAc;AAAA,EAChE;AACA,QAAM,SAAS,SAAS,OAAO,CAAC,MAAM,EAAE,aAAa,OAAO,EAAE;AAC9D,QAAM,WAAW,SAAS,OAAO,CAAC,MAAM,EAAE,aAAa,MAAM,EAAE;AAE/D,SAAO;AAAA,IACL,YAAY,KAAK,WAAW,kBAAkB;AAAA,IAC9C;AAAA,IACA;AAAA,IACA,QAAQ,EAAE,QAAQ,UAAU,aAAa,MAAM,OAAO;AAAA,EACxD;AACF;AAEA,SAAS,gBACP,SACA,gBACA,YACe;AACf,QAAM,EAAE,QAAQ,IAAI,OAAO,cAAc;AACzC,QAAM,WAA0B,CAAC;AAEjC,QAAM,WAAW,QACd,QAAQ,mBAAmB,EAAE,EAC7B,QAAQ,YAAY,EAAE;AACzB,QAAM,KAAK;AACX,QAAM,OAAO,oBAAI,IAAY;AAC7B,MAAI;AACJ,UAAQ,IAAI,GAAG,KAAK,QAAQ,OAAO,MAAM;AACvC,UAAM,SAAS,EAAE,CAAC,EAAE,KAAK,EAAE,MAAM,GAAG,EAAE,CAAC,EAAE,MAAM,GAAG,EAAE,IAAI,EAAG,QAAQ,SAAS,EAAE;AAC9E,QAAI,KAAK,IAAI,MAAM,EAAG;AACtB,SAAK,IAAI,MAAM;AACf,QAAI,CAAC,WAAW,IAAI,MAAM,GAAG;AAC3B,eAAS,KAAK;AAAA,QACZ,MAAM;AAAA,QACN,MAAM;AAAA,QACN,UAAU;AAAA,QACV,SAAS,cAAc,MAAM;AAAA,MAC/B,CAAC;AAAA,IACH;AAAA,EACF;AACA,SAAO;AACT;AAEO,SAAS,iBAAiB,QAAoB,OAA8C,CAAC,GAAW;AAC7G,QAAM,SAAS,KAAK,OAAO,OAAO,OAAO,KAAK,IAAI,IAAI,OAAO;AAC7D,MAAI,OAAO,WAAW,GAAG;AACvB,WAAO,4BAA4B,OAAO,OAAO,WAAW;AAAA,EAC9D;AACA,QAAM,QAAQ;AAAA,IACZ,GAAG,OAAO,MAAM,WAAW,OAAO,WAAW,IAAI,KAAK,GAAG,YAAY,OAAO,OAAO,MAAM,cAAc,OAAO,OAAO,QAAQ,WAAW,OAAO,OAAO,WAAW;AAAA,IACjK;AAAA,EACF;AACA,aAAW,KAAK,QAAQ;AACtB,UAAM,KAAK,IAAI,EAAE,QAAQ,KAAK,EAAE,IAAI,KAAK,EAAE,IAAI,WAAM,EAAE,OAAO,EAAE;AAAA,EAClE;AACA,SAAO,MAAM,KAAK,IAAI;AACxB;","names":[]}