sensemaking 0.14.0 → 0.15.0

package/dist/cjs/db/open.d.cts

@@ -1,7 +1,7 @@
 import { DatabaseSync } from 'node:sqlite';
 import type { ResolvedConfig } from '../config/index.js';
 export declare const DB_FILENAME = "cache.db";
-export declare const SCHEMA_VERSION = "14";
+export declare const SCHEMA_VERSION = "15";
 export interface OpenResult {
     db: DatabaseSync;
     cfg: ResolvedConfig;

package/dist/cjs/db/open.d.ts

@@ -1,7 +1,7 @@
 import { DatabaseSync } from 'node:sqlite';
 import type { ResolvedConfig } from '../config/index.js';
 export declare const DB_FILENAME = "cache.db";
-export declare const SCHEMA_VERSION = "14";
+export declare const SCHEMA_VERSION = "15";
 export interface OpenResult {
     db: DatabaseSync;
     cfg: ResolvedConfig;

package/dist/cjs/db/open.js

@@ -62,7 +62,7 @@ function _unsupported_iterable_to_array(o, minLen) {
     if (n === "Arguments" || /^(?:Ui|I)nt(?:8|16|32)(?:Clamped)?Array$/.test(n)) return _array_like_to_array(o, minLen);
 }
 var DB_FILENAME = 'cache.db';
-var SCHEMA_VERSION = '14';
+var SCHEMA_VERSION = '15';
 // Stemming is English-only, but the segmentation underneath it is what decides coverage:
 // unicode61 splits on spaces, so a language written without them (Chinese, Japanese, Thai)
 // indexes a whole run as one token and word search finds nothing. `content.tokenize` is how

package/dist/cjs/db/open.js.map

@@ -1 +1 @@
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Features add their own tables after the core ones.\nfunction ensureSchema(db: DatabaseSync, cfg: Config, tokenize: string): void {\n  db.exec(`CREATE TABLE IF NOT EXISTS frontmatter (\"path\" TEXT PRIMARY KEY, \"_mtime\" REAL, \"_ctime\" REAL, \"_size\" INTEGER, \"_parse_error\" TEXT)`);\n  // IF NOT EXISTS is safe against a tokenizer change: open() compares the table's own DDL\n  // against the resolved tokenizer before this runs, so a stale table is already gone by now.\n  // The three `_seg` sidecars are appended after path, never inserted: bm25(content, ...) and\n  // snippet(content, 2, ...) are documented against the first three columns and keep working\n  // (FTS5 defaults the weights it was not given). 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Features add their own tables after the core ones.\nfunction ensureSchema(db: DatabaseSync, cfg: Config, tokenize: string): void {\n  db.exec(`CREATE TABLE IF NOT EXISTS frontmatter (\"path\" TEXT PRIMARY KEY, \"_mtime\" REAL, \"_ctime\" REAL, \"_size\" INTEGER, \"_parse_error\" TEXT)`);\n  // IF NOT EXISTS is safe against a tokenizer change: open() compares the table's own DDL\n  // against the resolved tokenizer before this runs, so a stale table is already gone by now.\n  // The three `_seg` sidecars are appended after path, never inserted: bm25(content, ...) and\n  // snippet(content, 2, ...) are documented against the first three columns and keep working\n  // (FTS5 defaults the weights it was not given). Each carries its field's exploded unspaced\n  // runs for text that needs it, and an empty string for text that does not.\n  db.exec(`CREATE VIRTUAL TABLE IF NOT EXISTS content USING fts5(title, summary, text, path UNINDEXED, title_seg, summary_seg, text_seg, tokenize = '${tokenize}')`);\n  // Coverage, not ownership: a path can appear under several presets. path leads the PK so the\n  // per-doc delete is an index hit -- keyed the other way, cold builds went quadratic.\n  db.exec(`CREATE TABLE IF NOT EXISTS preset_files (\"path\" TEXT, preset TEXT, PRIMARY KEY (\"path\", preset))`);\n  db.exec('CREATE INDEX IF NOT EXISTS preset_files_preset ON preset_files(preset)');\n  for (const feature of activeFeatures(cfg)) feature.schema(db);\n  if (getMeta(db, 'schema_version') === null) setMeta(db, 'schema_version', SCHEMA_VERSION);\n  if (getMeta(db, 'features') === null) setMeta(db, 'features', featureSignature(cfg));\n}\n\nexport function docCount(db: DatabaseSync): number {\n  const row = db.prepare('SELECT COUNT(*) AS n FROM frontmatter').get() as { n: number };\n  return row.n;\n}\n\nexport function open(cfg: ResolvedConfig): OpenResult {\n  const stateDir = join(cfg.baseDir, STATE_DIR);\n  mkdirSync(stateDir, { recursive: true });\n  const dbPath = join(stateDir, DB_FILENAME);\n\n  const db = new DatabaseSync(dbPath);\n  db.exec('PRAGMA journal_mode = WAL');\n  // Covers a concurrent watcher's bulk reconcile (~5s for 500 files at 26k notes). A query\n  // that outwaits it still fails loudly.\n  db.exec('PRAGMA busy_timeout = 30000');\n  registerFunctions(db, contentTokenize(cfg) === undefined);\n\n  db.exec('CREATE TABLE IF NOT EXISTS meta (key TEXT PRIMARY KEY, value TEXT)');\n\n  // Before the rebuild branch below, never after: that branch deletes the cache, so a typo'd\n  // tokenizer validated later would cost a full re-index (and re-embed) to reach its own error.\n  const tokenize = resolveTokenize(db, cfg);\n\n  // Schema-version or feature-set mismatch: reconcile only reparses changed files, so an\n  // old cache can't be patched incrementally -- rebuild instead (cheap: nothing expensive lives here).\n  const version = getMeta(db, 'schema_version');\n  const features = getMeta(db, 'features');\n  const wantFeatures = featureSignature(cfg);\n  let tokenizeOnlyRebuild = false;\n  if ((version !== null && version !== SCHEMA_VERSION) || (features !== null && features !== wantFeatures)) {\n    // Indexing derives from presets, so a config edit rebuilding the cache must say so and\n    // name what changed -- silent rebuilds make derived indexing look like a hang or a bug.\n    if (version !== null && version !== SCHEMA_VERSION) {\n      console.error('sense: cache format changed (new sensemaking version); rebuilding the index');\n      db.close();\n      clearCache(cfg);\n      return open(cfg);\n    }\n    const changedKeys = changedSignatureKeys(features ?? '', wantFeatures);\n    // Only the tokenizer moved: frontmatter, links, sections, and embeddings are file-derived\n    // and tokenizer-independent, so they don't need re-deriving. Everything else -- a preset\n    // edit, an embed model change -- still takes the full clear/reopen below.\n    if (changedKeys.size === 1 && changedKeys.has('tokenize')) {\n      console.error('sense: config change (content tokenizer) rebuilds the text index; vectors, links, and sections are kept');\n      db.exec('DROP TABLE content');\n      tokenizeOnlyRebuild = true;\n    } else {\n      const changed = signatureDiff(features ?? '', wantFeatures);\n      console.error(`sense: config change (${changed}) rebuilds the index`);\n      db.close();\n      clearCache(cfg);\n      return open(cfg);\n    }\n  }\n\n  // Meta can lie after a crash between table creation and the signature write; the table's\n  // own DDL cannot. A mismatch here rebuilds no matter what meta says. A tokenize-only rebuild\n  // just dropped content above, so storedTokenize sees no table and this guard is skipped\n  // naturally rather than needing its own case.\n  const stored = storedTokenize(db);\n  if (stored !== null && stored !== tokenize) {\n    console.error('sense: cache was built with a different content tokenizer; rebuilding the index');\n    db.close();\n    clearCache(cfg);\n    return open(cfg);\n  }\n\n  ensureSchema(db, cfg, tokenize);\n\n  let rebuildWarnings: string[] = [];\n  if (tokenizeOnlyRebuild) {\n    rebuildWarnings = rebuildContentTable(db, cfg, cfg.baseDir);\n    setMeta(db, 'features', wantFeatures);\n  }\n\n  // 3x the largest reconcile this cache has recorded, floored at 30s and capped at 10min.\n  // Installed before reconcile() -- that call is the one that races a watcher's transaction.\n  const recordedMaxMs = Number(getMeta(db, 'reconcile_max_ms') ?? 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Manual reset for a doubted cache; the schema and\n// config-signature mismatches below reset themselves.\nexport function clearCache(cfg: ResolvedConfig): void {\n  rmSync(join(cfg.baseDir, STATE_DIR), { recursive: true, force: true });\n}\n"],"names":["DB_FILENAME","SCHEMA_VERSION","clearCache","docCount","open","DEFAULT_TOKENIZE","resolveTokenize","db","cfg","configured","contentTokenize","undefined","literal","replace","exec","err","SenseError","message","storedTokenize","row","prepare","get","m","sql","match","ensureSchema","tokenize","activeFeatures","feature","schema","getMeta","setMeta","featureSignature","n","stateDir","join","baseDir","STATE_DIR","mkdirSync","recursive","dbPath","DatabaseSync","registerFunctions","version","features","wantFeatures","tokenizeOnlyRebuild","console","error","close","changedKeys","changedSignatureKeys","size","has","changed","signatureDiff","stored","rebuildWarnings","rebuildContentTable","recordedMaxMs","Number","Math","min","max","reconcile","parsed","warnings","rmSync","force"],"mappings":"AAAA,+FAA+F;AAC/F,iGAAiG;;;;;;;;;;;;QAYpFA;eAAAA;;QAGAC;eAAAA;;QAyJGC;eAAAA;;QAzFAC;eAAAA;;QAKAC;eAAAA;;;sBAnFkB;wBACb;0BACQ;uBAEgC;wBAClC;wBACI;8BACG;2BACkD;wBACnD;;;;;;;;;;;;;;;;;;;;;;;;;;AAE1B,IAAMJ,cAAc;AAGpB,IAAMC,iBAAiB;AAU9B,yFAAyF;AACzF,2FAA2F;AAC3F,4FAA4F;AAC5F,qCAAqC;AACrC,IAAMI,mBAAmB;AAEzB,wFAAwF;AACxF,6FAA6F;AAC7F,6FAA6F;AAC7F,6FAA6F;AAC7F,+DAA+D;AAC/D,SAASC,gBAAgBC,EAAgB,EAAEC,GAAW;IACpD,IAAMC,aAAaC,IAAAA,wBAAe,EAACF;IACnC,IAAIC,eAAeE,WAAW,OAAON;IACrC,IAAMO,UAAUH,WAAWI,OAAO,CAAC,MAAM;IACzC,IAAI;QACFN,GAAGO,IAAI,CAAC;QACRP,GAAGO,IAAI,CAAC,AAAC,4EAAmF,OAARF,SAAQ;QAC5FL,GAAGO,IAAI,CAAC;IACV,EAAE,OAAOC,KAAK;QACZ,MAAM,IAAIC,oBAAU,CAAC,kBAAkB,AAAC,qBAA2E,OAAvDP,YAAW,8CAAmE,OAAvB,AAACM,IAAcE,OAAO,EAAC;IAC5I;IACA,OAAOL;AACT;AAEA,uFAAuF;AACvF,2FAA2F;AAC3F,SAASM,eAAeX,EAAgB;IACtC,IAAMY,MAAMZ,GAAGa,OAAO,CAAC,wDAAwDC,GAAG;IAClF,IAAI,CAACF,KAAK,OAAO;IACjB,IAAMG,IAAIH,IAAII,GAAG,CAACC,KAAK,CAAC;IACxB,OAAOF,IAAIA,CAAC,CAAC,EAAE,GAAG;AACpB;AAEA,2FAA2F;AAC3F,wFAAwF;AACxF,SAASG,aAAalB,EAAgB,EAAEC,GAAW,EAAEkB,QAAgB;IACnEnB,GAAGO,IAAI,CAAC;IACR,wFAAwF;IACxF,4FAA4F;IAC5F,4FAA4F;IAC5F,2FAA2F;IAC3F,2FAA2F;IAC3F,2EAA2E;IAC3EP,GAAGO,IAAI,CAAC,AAAC,6IAAqJ,OAATY,UAAS;IAC9J,6FAA6F;IAC7F,qFAAqF;IACrFnB,GAAGO,IAAI,CAAC;IACRP,GAAGO,IAAI,CAAC;QACH,kCAAA,2BAAA;;QAAL,QAAK,YAAiBa,IAAAA,wBAAc,EAACnB,yBAAhC,SAAA,6BAAA,QAAA,yBAAA;YAAA,IAAMoB,UAAN;YAAsCA,QAAQC,MAAM,CAACtB;;;QAArD;QAAA;;;iBAAA,6BAAA;gBAAA;;;gBAAA;sBAAA;;;;IACL,IAAIuB,IAAAA,iBAAO,EAACvB,IAAI,sBAAsB,MAAMwB,IAAAA,iBAAO,EAACxB,IAAI,kBAAkBN;IAC1E,IAAI6B,IAAAA,iBAAO,EAACvB,IAAI,gBAAgB,MAAMwB,IAAAA,iBAAO,EAACxB,IAAI,YAAYyB,IAAAA,yBAAgB,EAACxB;AACjF;AAEO,SAASL,SAASI,EAAgB;IACvC,IAAMY,MAAMZ,GAAGa,OAAO,CAAC,yCAAyCC,GAAG;IACnE,OAAOF,IAAIc,CAAC;AACd;AAEO,SAAS7B,KAAKI,GAAmB;QAwETsB;IAvE7B,IAAMI,WAAWC,IAAAA,cAAI,EAAC3B,IAAI4B,OAAO,EAAEC,kBAAS;IAC5CC,IAAAA,iBAAS,EAACJ,UAAU;QAAEK,WAAW;IAAK;IACtC,IAAMC,SAASL,IAAAA,cAAI,EAACD,UAAUlC;IAE9B,IAAMO,KAAK,IAAIkC,wBAAY,CAACD;IAC5BjC,GAAGO,IAAI,CAAC;IACR,yFAAyF;IACzF,uCAAuC;IACvCP,GAAGO,IAAI,CAAC;IACR4B,IAAAA,iCAAiB,EAACnC,IAAIG,IAAAA,wBAAe,EAACF,SAASG;IAE/CJ,GAAGO,IAAI,CAAC;IAER,2FAA2F;IAC3F,8FAA8F;IAC9F,IAAMY,WAAWpB,gBAAgBC,IAAIC;IAErC,uFAAuF;IACvF,qGAAqG;IACrG,IAAMmC,UAAUb,IAAAA,iBAAO,EAACvB,IAAI;IAC5B,IAAMqC,WAAWd,IAAAA,iBAAO,EAACvB,IAAI;IAC7B,IAAMsC,eAAeb,IAAAA,yBAAgB,EAACxB;IACtC,IAAIsC,sBAAsB;IAC1B,IAAI,AAACH,YAAY,QAAQA,YAAY1C,kBAAoB2C,aAAa,QAAQA,aAAaC,cAAe;QACxG,uFAAuF;QACvF,wFAAwF;QACxF,IAAIF,YAAY,QAAQA,YAAY1C,gBAAgB;YAClD8C,QAAQC,KAAK,CAAC;YACdzC,GAAG0C,KAAK;YACR/C,WAAWM;YACX,OAAOJ,KAAKI;QACd;QACA,IAAM0C,cAAcC,IAAAA,iCAAoB,EAACP,qBAAAA,sBAAAA,WAAY,IAAIC;QACzD,0FAA0F;QAC1F,yFAAyF;QACzF,0EAA0E;QAC1E,IAAIK,YAAYE,IAAI,KAAK,KAAKF,YAAYG,GAAG,CAAC,aAAa;YACzDN,QAAQC,KAAK,CAAC;YACdzC,GAAGO,IAAI,CAAC;YACRgC,sBAAsB;QACxB,OAAO;YACL,IAAMQ,UAAUC,IAAAA,0BAAa,EAACX,qBAAAA,sBAAAA,WAAY,IAAIC;YAC9CE,QAAQC,KAAK,CAAC,AAAC,yBAAgC,OAARM,SAAQ;YAC/C/C,GAAG0C,KAAK;YACR/C,WAAWM;YACX,OAAOJ,KAAKI;QACd;IACF;IAEA,yFAAyF;IACzF,6FAA6F;IAC7F,wFAAwF;IACxF,8CAA8C;IAC9C,IAAMgD,SAAStC,eAAeX;IAC9B,IAAIiD,WAAW,QAAQA,WAAW9B,UAAU;QAC1CqB,QAAQC,KAAK,CAAC;QACdzC,GAAG0C,KAAK;QACR/C,WAAWM;QACX,OAAOJ,KAAKI;IACd;IAEAiB,aAAalB,IAAIC,KAAKkB;IAEtB,IAAI+B,kBAA4B,EAAE;IAClC,IAAIX,qBAAqB;QACvBW,kBAAkBC,IAAAA,gCAAmB,EAACnD,IAAIC,KAAKA,IAAI4B,OAAO;QAC1DL,IAAAA,iBAAO,EAACxB,IAAI,YAAYsC;IAC1B;IAEA,wFAAwF;IACxF,2FAA2F;IAC3F,IAAMc,gBAAgBC,QAAO9B,WAAAA,IAAAA,iBAAO,EAACvB,IAAI,iCAAZuB,sBAAAA,WAAmC;IAChEvB,GAAGO,IAAI,CAAC,AAAC,yBAA8E,OAAtD+C,KAAKC,GAAG,CAACD,KAAKE,GAAG,CAAC,OAAO,IAAIJ,gBAAgB;IAE9E,IAA6BK,aAAAA,IAAAA,sBAAS,EAACzD,IAAIC,KAAKA,IAAI4B,OAAO,GAAnD6B,SAAqBD,WAArBC,QAAQC,WAAaF,WAAbE;IAEhB,OAAO;QAAE3D,IAAAA;QAAIC,KAAAA;QAAKgC,QAAAA;QAAQyB,QAAAA;QAAQC,UAAU,AAAC,qBAAGT,wBAAiB,qBAAGS;IAAU;AAChF;AAMO,SAAShE,WAAWM,GAAmB;IAC5C2D,IAAAA,cAAM,EAAChC,IAAAA,cAAI,EAAC3B,IAAI4B,OAAO,EAAEC,kBAAS,GAAG;QAAEE,WAAW;QAAM6B,OAAO;IAAK;AACtE"}

package/dist/cjs/features/embed.js

@@ -48,6 +48,7 @@ var _nodeos = require("node:os");
 var _nodepath = require("node:path");
 var _indexts = require("../config/index.js");
 var _errorsts = require("../errors.js");
+var _fencests = require("../fences.js");
 var _progressts = require("../progress.js");
 var _scants = require("../scan.js");
 function _array_like_to_array(arr, len) {
@@ -311,13 +312,10 @@ function chunksOf(body, search) {
     var offset = arguments.length > 2 && arguments[2] !== void 0 ? arguments[2] : 0;
     var lines = body.split('\n');
     var starts = [];
-    var inFence = false;
+    var fence = (0, _fencests.fenceTracker)();
     for(var i = 0; i < lines.length; i++){
-        if (/^(```|~~~)/.test(lines[i])) {
-            inFence = !inFence;
-            continue;
-        }
-        if (!inFence && /^#{1,6} +/.test(lines[i])) starts.push(i + 1);
+        if (fence.feed(lines[i])) continue;
+        if (!fence.inFence && /^#{1,6} +/.test(lines[i])) starts.push(i + 1);
     }
     var bounds = starts.length === 0 ? [
         1

package/dist/cjs/features/embed.js.map

@@ -1 +1 @@
-{"version":3,"sources":["/Users/kevin/Dev/OpenSource/ai/sensemaking/src/features/embed.ts"],"sourcesContent":["import { existsSync, mkdirSync, readFileSync, renameSync, writeFileSync } from 'node:fs';\nimport { homedir } from 'node:os';\nimport { join } from 'node:path';\nimport type { DatabaseSync } from 'node:sqlite';\nimport type { Config, ResolvedConfig } from '../config/index.ts';\nimport { embedConfig } from '../config/index.ts';\nimport { SenseError } from '../errors.ts';\nimport { progress } from '../progress.ts';\nimport { parseFile } from '../scan.ts';\nimport type { Feature } from './types.ts';\n\n// Heading-based chunks, int8 vectors with a per-vector scale, NULL vector = not yet embedded.\n// Reconcile writes dirty rows; embedding tops up on the next search, so staleness costs recall.\n\n// Storage lever fixed by the bake-off (BENCHMARKING.md): int8 at 256 dims is\n// quality-free vs f32-512 when fused. Queries stay f32 at the same dims.\nconst STORE_DIMS = 256;\n// Seed chunks that participate in a `related` scan; see similarNotes for the measurement.\nconst TARGET_CHUNK_CAP = 16;\nconst BATCH = 64;\n\nexport interface EmbedProvider {\n  id: string; // model identity; participates in the cache key, change -> re-embed\n  dims: number;\n  embed(texts: string[]): Promise<Float32Array[]>;\n}\n\ninterface Chunk {\n  startLine: number;\n  endLine: number;\n  text: string;\n}\n\n// Deterministic, so embed time can re-derive text from stored line ranges. Heading-delimited,\n// preamble kept, whole body when no headings; the title/summary prefix mirrors bm25 weighting.\n//\n// Chunks the body, not the raw file, with `offset` shifting line numbers back onto the raw\n// file so a range stays a direct Read range (sections is 1-indexed over raw too). Chunking raw\n// put the frontmatter block in its own leading chunk on every note with a heading, which made\n// `lines` point at YAML and made frontmatter-only notes near-identical to each other. It also\n// disagreed with FTS, which indexes the body alone.\nfunction chunksOf(body: string, search?: { title: string; summary: string }, offset = 0): Chunk[] {\n  const lines = body.split('\\n');\n  const starts: number[] = [];\n  let inFence = false;\n  for (let i = 0; i < lines.length; i++) {\n    if (/^(```|~~~)/.test(lines[i])) {\n      inFence = !inFence;\n      continue;\n    }\n    if (!inFence && /^#{1,6} +/.test(lines[i])) starts.push(i + 1);\n  }\n  const bounds = starts.length === 0 ? [1] : starts[0] > 1 ? [1, ...starts] : starts;\n  const prefix = [search?.title, search?.summary].filter(Boolean).join('\\n');\n  const chunks: Chunk[] = [];\n  bounds.forEach((start, i) => {\n    const end = i + 1 < bounds.length ? bounds[i + 1] - 1 : lines.length;\n    const text = lines\n      .slice(start - 1, end)\n      .join('\\n')\n      .trim();\n    // A body with nothing in it yields no chunks at all, so a frontmatter-only note has no\n    // vectors rather than a vector of its own YAML.\n    if (text.length > 0) chunks.push({ startLine: start + offset, endLine: end + offset, text: prefix ? `${prefix}\\n${text}` : text });\n  });\n  return chunks;\n}\n\nexport const embed: Feature = {\n  name: 'embed',\n  schema(db) {\n    db.exec(`CREATE TABLE IF NOT EXISTS embeddings (\"path\" TEXT, chunk INTEGER, start_line INTEGER, end_line INTEGER, scale REAL, vector BLOB, PRIMARY KEY (\"path\", chunk))`);\n  },\n  extract(raw, body, search) {\n    // Lines the frontmatter occupies, so body line 1 maps back to its raw line number.\n    return chunksOf(body, search, raw.split('\\n').length - body.split('\\n').length);\n  },\n  remove(db, path) {\n    db.prepare('DELETE FROM embeddings WHERE \"path\" = ?').run(path);\n  },\n  // A tree with no embedding model never had extract() run for the doc (db.ts's per-file\n  // filter skips it), so extracted is undefined here -- store nothing, i.e. no rows.\n  store(db, path, extracted) {\n    if (!extracted) return;\n    const insert = db.prepare('INSERT INTO embeddings (\"path\", chunk, start_line, end_line, scale, vector) VALUES (?, ?, ?, ?, NULL, NULL)');\n    (extracted as Chunk[]).forEach((c, idx) => insert.run(path, idx, c.startLine, c.endLine));\n  },\n  enabledForFile(_cfg, file) {\n    return file.embed;\n  },\n};\n\n// --- static type: Model2Vec safetensors + pure-JS tokenizer, model cached in ~/.cache ---\n// Encode convention from model2vec/model.py: no special tokens, drop unk ids, mean-pool,\n// L2-normalize.\n\nconst MODEL_FILES = ['model.safetensors', 'tokenizer.json'];\n// The pair, for messages that name what a local model directory must contain.\nexport const MODEL_FILENAMES = MODEL_FILES.join(' and ');\n\n// A Hugging Face repo id: one slash, HF's charset. Anything else is a path, used as one rather\n// than flattened into a cache key Windows would reject.\nconst HF_MODEL_ID = /^[A-Za-z0-9][\\w.-]*\\/[A-Za-z0-9][\\w.-]*$/;\n\n// Downloadable iff it names a Hugging Face repo; a local path is the caller's to populate.\nexport function isDownloadable(model: string): boolean {\n  return HF_MODEL_ID.test(model);\n}\n\n// Machine-wide, not per-tree: `.sense/` is the index a rebuild throws away, while a 124 MB\n// model is shared by every tree on the machine. Honors XDG_CACHE_HOME where it is set;\n// elsewhere ~/.cache, which is also where Hugging Face's own libraries keep theirs.\nfunction cacheRoot(): string {\n  const xdg = process.env.XDG_CACHE_HOME;\n  return join(xdg && xdg.length > 0 ? xdg : join(homedir(), '.cache'), 'sensemaking', 'models');\n}\n\n// A model is either a local directory the caller pointed at, or the cache `sense download`\n// fills. Nothing here fetches: an absent model degrades search to its other signals rather\n// than pulling 124 MB out of a command that reads like a query.\nexport function modelDir(model: string): string {\n  if (!HF_MODEL_ID.test(model)) return model;\n  return join(cacheRoot(), model.replace(/\\//g, '--'));\n}\n\n// Both files, so an interrupted download reads as absent and the next one resumes it.\nexport function hasModelFiles(model: string): boolean {\n  const dir = modelDir(model);\n  return MODEL_FILES.every((file) => existsSync(join(dir, file)));\n}\n\n// api providers have nothing to download, so they are never \"missing\" here; an unreachable\n// endpoint surfaces as an EMBED_MODEL error at call time instead.\nexport function modelPresent(cfg: Config): boolean {\n  const e = embedConfig(cfg);\n  if (!e) return false;\n  return e.type === 'api' || hasModelFiles(e.model);\n}\n\nfunction fetchToFile(url: string, dest: string): Promise<void> {\n  return fetch(url).then(async (res) => {\n    if (!res.ok) throw new SenseError('EMBED_MODEL', `model download failed: ${url} -> HTTP ${res.status}`);\n    writeFileSync(`${dest}.part`, Buffer.from(await res.arrayBuffer()));\n    renameSync(`${dest}.part`, dest);\n  });\n}\n\n// The only code path that touches the network for weights. `sense download` calls it; no\n// query ever does. Idempotent: a file already on disk is left alone.\nexport async function downloadModel(model: string, onFile?: (file: string, dir: string) => void): Promise<string> {\n  if (!isDownloadable(model)) {\n    throw new SenseError('EMBED_MODEL', `embed.model \"${model}\" is a local path, not a Hugging Face model id, so there is nothing to download; put model.safetensors and tokenizer.json in that directory, or name a model id like \"minishlab/potion-retrieval-32M\"`);\n  }\n  const dir = modelDir(model);\n  mkdirSync(dir, { recursive: true });\n  for (const file of MODEL_FILES) {\n    if (existsSync(join(dir, file))) continue;\n    onFile?.(file, dir);\n    await fetchToFile(`https://huggingface.co/${model}/resolve/main/${file}`, join(dir, file));\n  }\n  return dir;\n}\n\nasync function staticProvider(model: string): Promise<EmbedProvider> {\n  const dir = modelDir(model);\n  for (const file of MODEL_FILES) {\n    if (!existsSync(join(dir, file))) {\n      // A local path the caller controls gets told what is missing where; only a repo id can\n      // be fixed by downloading.\n      const fix = isDownloadable(model) ? 'run `sense download`' : `expected ${MODEL_FILENAMES} in that directory`;\n      throw new SenseError('EMBED_MODEL_MISSING', `embed model ${model} is not available (looked in ${dir}); ${fix}`);\n    }\n  }\n\n  const raw = readFileSync(join(dir, 'model.safetensors'));\n  const headerLen = Number(raw.readBigUInt64LE(0));\n  const header = JSON.parse(raw.subarray(8, 8 + headerLen).toString('utf8')) as Record<string, { dtype: string; shape: number[]; data_offsets: number[] }>;\n  const entry = Object.entries(header).find(([k]) => k !== '__metadata__');\n  if (!entry || entry[1].dtype !== 'F32') throw new SenseError('EMBED_MODEL', `${model}: expected an F32 safetensors matrix`);\n  const spec = entry[1];\n  const dims = spec.shape[1];\n  const dataStart = raw.byteOffset + 8 + headerLen + spec.data_offsets[0];\n  const matrix = dataStart % 4 === 0 ? new Float32Array(raw.buffer, dataStart, spec.shape[0] * dims) : new Float32Array(raw.buffer.slice(dataStart, dataStart + spec.shape[0] * dims * 4));\n\n  const tokenizerJson = JSON.parse(readFileSync(join(dir, 'tokenizer.json'), 'utf8'));\n  // Lazy import: the tokenizer loads only on the semantic path, never at CLI startup.\n  const { Tokenizer } = await import('@huggingface/tokenizers');\n  const tok = new Tokenizer(tokenizerJson, {});\n  const unkId = tokenizerJson.model?.vocab?.[tokenizerJson.model?.unk_token] ?? -1;\n\n  function one(text: string): Float32Array {\n    // The tokenizer yields undefined (not the unk id) for tokens outside the vocab; an\n    // undefined id would index the matrix at NaN and poison the whole mean-pool -- and the\n    // int8 conversion then stores the NaN vector as all zeros, silently. Keep integers only.\n    const ids = (tok.encode(text, { add_special_tokens: false }).ids as number[]).filter((id) => Number.isInteger(id) && id !== unkId);\n    const v = new Float32Array(dims);\n    if (ids.length === 0) return v;\n    for (const id of ids) {\n      const off = id * dims;\n      for (let d = 0; d < dims; d++) v[d] += matrix[off + d];\n    }\n    let norm = 0;\n    for (let d = 0; d < dims; d++) {\n      v[d] /= ids.length;\n      norm += v[d] * v[d];\n    }\n    norm = Math.sqrt(norm) + 1e-32;\n    for (let d = 0; d < dims; d++) v[d] /= norm;\n    return v;\n  }\n\n  return { id: `static:${model}`, dims, embed: async (texts) => texts.map(one) };\n}\n\n// --- api type: one POST against any OpenAI-compatible /embeddings endpoint ---\n\nasync function apiProvider(model: string, url: string | undefined, keyEnv: string | undefined): Promise<EmbedProvider> {\n  if (!url) throw new SenseError('EMBED_MODEL', 'features.embed.type \"api\" requires a url');\n  const base = url.replace(/\\/+$/, '');\n  const headers: Record<string, string> = { 'content-type': 'application/json' };\n  const key = keyEnv ? process.env[keyEnv] : undefined;\n  if (key) headers.authorization = `Bearer ${key}`;\n\n  async function post(texts: string[]): Promise<Float32Array[]> {\n    const res = await fetch(`${base}/embeddings`, { method: 'POST', headers, body: JSON.stringify({ model, input: texts }) });\n    if (!res.ok) throw new SenseError('EMBED_MODEL', `${base}/embeddings -> HTTP ${res.status}`);\n    const body = (await res.json()) as { data: Array<{ embedding: number[] }> };\n    return body.data.map((d) => Float32Array.from(d.embedding));\n  }\n\n  const dims = (await post(['dimension probe']))[0].length;\n  return { id: `api:${base}:${model}`, dims, embed: post };\n}\n\nconst providers = new Map<string, Promise<EmbedProvider>>();\n\nfunction getProvider(cfg: Config): Promise<EmbedProvider> {\n  const e = embedConfig(cfg);\n  if (!e) throw new SenseError('EMBED_DISABLED', 'this tree has no embedding model: add an \"embed\" block naming one to sense.config.json, then run `sense download`');\n  const sig = `${e.type}:${e.model}:${e.url ?? ''}`;\n  let p = providers.get(sig);\n  if (!p) {\n    p = e.type === 'api' ? apiProvider(e.model, e.url, e.key) : staticProvider(e.model);\n    providers.set(sig, p);\n  }\n  return p;\n}\n\n// Slice + re-normalize (Matryoshka); optionally round through int8 storage.\nfunction toStore(full: Float32Array, dims: number, int8: boolean): { v: Float32Array; scale: number } {\n  const v = new Float32Array(dims);\n  let norm = 0;\n  for (let d = 0; d < dims; d++) norm += full[d] * full[d];\n  norm = Math.sqrt(norm) + 1e-32;\n  for (let d = 0; d < dims; d++) v[d] = full[d] / norm;\n  if (!int8) return { v, scale: 1 };\n  let max = 0;\n  for (let d = 0; d < dims; d++) max = Math.max(max, Math.abs(v[d]));\n  return { v, scale: max / 127 || 1 };\n}\n\n// Embed rows whose vector is NULL, re-deriving chunk text from the files through the\n// same parse + chunker that stored the rows.\nexport async function embedPending(db: DatabaseSync, cfg: Config, baseDir: string): Promise<void> {\n  const provider = await getProvider(cfg); // throws EMBED_DISABLED before touching the table\n  const dirty = db.prepare('SELECT \"path\", chunk FROM embeddings WHERE vector IS NULL ORDER BY \"path\", chunk').all() as Array<{ path: string; chunk: number }>;\n  if (dirty.length === 0) return;\n  const storeDims = Math.min(STORE_DIMS, provider.dims);\n\n  const byPath = new Map<string, number[]>();\n  for (const row of dirty) {\n    const list = byPath.get(row.path) ?? [];\n    list.push(row.chunk);\n    byPath.set(row.path, list);\n  }\n\n  const jobs: Array<{ path: string; chunk: number; text: string }> = [];\n  for (const [path, chunkIdxs] of byPath) {\n    let chunks: Chunk[];\n    try {\n      // presets/embed are irrelevant here -- re-deriving chunk text for a doc that already\n      // has embeddings rows means the tree had an embedding model at reconcile time.\n      chunks = parseFile({ relPath: path, absPath: join(baseDir, path), mtimeMs: 0, ctimeMs: 0, size: 0, presets: [], embed: true }, [embed]).doc.extracted.embed as Chunk[];\n    } catch {\n      continue; // vanished since reconcile; the next reconcile removes its rows\n    }\n    for (const idx of chunkIdxs) if (chunks[idx]) jobs.push({ path, chunk: idx, text: chunks[idx].text });\n  }\n\n  const update = db.prepare('UPDATE embeddings SET scale = ?, vector = ? WHERE \"path\" = ? AND chunk = ?');\n  // The lazy build is the one long silence a first search hits (measured 23s at\n  // 26k notes); progress makes it distinguishable from a hang.\n  const report = progress('embedding chunks', jobs.length);\n  for (let i = 0; i < jobs.length; i += BATCH) {\n    const batch = jobs.slice(i, i + BATCH);\n    const vectors = await provider.embed(batch.map((j) => j.text));\n    db.exec('BEGIN');\n    try {\n      batch.forEach((job, j) => {\n        const { v, scale } = toStore(vectors[j], storeDims, true);\n        const q = new Int8Array(storeDims);\n        for (let d = 0; d < storeDims; d++) q[d] = Math.round(v[d] / scale);\n        update.run(scale, Buffer.from(q.buffer), job.path, job.chunk);\n      });\n      db.exec('COMMIT');\n    } catch (err) {\n      db.exec('ROLLBACK');\n      throw err;\n    }\n    report.tick(Math.min(i + BATCH, jobs.length));\n  }\n  report.finish();\n}\n\n// Dequantised int8 dot products land a little either side of a true cosine, so an identical\n// pair prints 1.001 and undermines a column whose whole job is being a bounded number.\nfunction asCosine(score: number): number {\n  return Math.round(Math.min(1, Math.max(-1, score)) * 1000) / 1000;\n}\n\n// Best chunk per file by cosine, its line range riding along; FTS5 operators are stripped as\n// lexical syntax. Similarity comes back because the fused score cannot express match quality,\n// and nearest-neighbour search always returns a neighbour however far away.\nexport async function semanticCandidates(db: DatabaseSync, cfg: Config, terms: string, fetch: number, allowed?: Set<string>): Promise<Array<{ path: string; lines: string; similarity: number }>> {\n  const baseDir = (cfg as Partial<ResolvedConfig>).baseDir;\n  if (!baseDir) throw new SenseError('EMBED_MODEL', 'semantic expansion needs a config with baseDir (use loadConfig/open)');\n  await embedPending(db, cfg, baseDir);\n\n  const provider = await getProvider(cfg);\n  const storeDims = Math.min(STORE_DIMS, provider.dims);\n  const text = (terms.match(/[\\p{L}\\p{N}]+/gu) ?? 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Queries stay f32 at the same dims.\nconst STORE_DIMS = 256;\n// Seed chunks that participate in a `related` scan; see similarNotes for the measurement.\nconst TARGET_CHUNK_CAP = 16;\nconst BATCH = 64;\n\nexport interface EmbedProvider {\n  id: string; // model identity; participates in the cache key, change -> re-embed\n  dims: number;\n  embed(texts: string[]): Promise<Float32Array[]>;\n}\n\ninterface Chunk {\n  startLine: number;\n  endLine: number;\n  text: string;\n}\n\n// Deterministic, so embed time can re-derive text from stored line ranges. Heading-delimited,\n// preamble kept, whole body when no headings; the title/summary prefix mirrors bm25 weighting.\n//\n// Chunks the body, not the raw file, with `offset` shifting line numbers back onto the raw\n// file so a range stays a direct Read range (sections is 1-indexed over raw too). Chunking raw\n// put the frontmatter block in its own leading chunk on every note with a heading, which made\n// `lines` point at YAML and made frontmatter-only notes near-identical to each other. It also\n// disagreed with FTS, which indexes the body alone.\nfunction chunksOf(body: string, search?: { title: string; summary: string }, offset = 0): Chunk[] {\n  const lines = body.split('\\n');\n  const starts: number[] = [];\n  const fence = fenceTracker();\n  for (let i = 0; i < lines.length; i++) {\n    if (fence.feed(lines[i])) continue;\n    if (!fence.inFence && /^#{1,6} +/.test(lines[i])) starts.push(i + 1);\n  }\n  const bounds = starts.length === 0 ? [1] : starts[0] > 1 ? [1, ...starts] : starts;\n  const prefix = [search?.title, search?.summary].filter(Boolean).join('\\n');\n  const chunks: Chunk[] = [];\n  bounds.forEach((start, i) => {\n    const end = i + 1 < bounds.length ? bounds[i + 1] - 1 : lines.length;\n    const text = lines\n      .slice(start - 1, end)\n      .join('\\n')\n      .trim();\n    // A body with nothing in it yields no chunks at all, so a frontmatter-only note has no\n    // vectors rather than a vector of its own YAML.\n    if (text.length > 0) chunks.push({ startLine: start + offset, endLine: end + offset, text: prefix ? `${prefix}\\n${text}` : text });\n  });\n  return chunks;\n}\n\nexport const embed: Feature = {\n  name: 'embed',\n  schema(db) {\n    db.exec(`CREATE TABLE IF NOT EXISTS embeddings (\"path\" TEXT, chunk INTEGER, start_line INTEGER, end_line INTEGER, scale REAL, vector BLOB, PRIMARY KEY (\"path\", chunk))`);\n  },\n  extract(raw, body, search) {\n    // Lines the frontmatter occupies, so body line 1 maps back to its raw line number.\n    return chunksOf(body, search, raw.split('\\n').length - body.split('\\n').length);\n  },\n  remove(db, path) {\n    db.prepare('DELETE FROM embeddings WHERE \"path\" = ?').run(path);\n  },\n  // A tree with no embedding model never had extract() run for the doc (db.ts's per-file\n  // filter skips it), so extracted is undefined here -- store nothing, i.e. no rows.\n  store(db, path, extracted) {\n    if (!extracted) return;\n    const insert = db.prepare('INSERT INTO embeddings (\"path\", chunk, start_line, end_line, scale, vector) VALUES (?, ?, ?, ?, NULL, NULL)');\n    (extracted as Chunk[]).forEach((c, idx) => insert.run(path, idx, c.startLine, c.endLine));\n  },\n  enabledForFile(_cfg, file) {\n    return file.embed;\n  },\n};\n\n// --- static type: Model2Vec safetensors + pure-JS tokenizer, model cached in ~/.cache ---\n// Encode convention from model2vec/model.py: no special tokens, drop unk ids, mean-pool,\n// L2-normalize.\n\nconst MODEL_FILES = ['model.safetensors', 'tokenizer.json'];\n// The pair, for messages that name what a local model directory must contain.\nexport const MODEL_FILENAMES = MODEL_FILES.join(' and ');\n\n// A Hugging Face repo id: one slash, HF's charset. Anything else is a path, used as one rather\n// than flattened into a cache key Windows would reject.\nconst HF_MODEL_ID = /^[A-Za-z0-9][\\w.-]*\\/[A-Za-z0-9][\\w.-]*$/;\n\n// Downloadable iff it names a Hugging Face repo; a local path is the caller's to populate.\nexport function isDownloadable(model: string): boolean {\n  return HF_MODEL_ID.test(model);\n}\n\n// Machine-wide, not per-tree: `.sense/` is the index a rebuild throws away, while a 124 MB\n// model is shared by every tree on the machine. Honors XDG_CACHE_HOME where it is set;\n// elsewhere ~/.cache, which is also where Hugging Face's own libraries keep theirs.\nfunction cacheRoot(): string {\n  const xdg = process.env.XDG_CACHE_HOME;\n  return join(xdg && xdg.length > 0 ? xdg : join(homedir(), '.cache'), 'sensemaking', 'models');\n}\n\n// A model is either a local directory the caller pointed at, or the cache `sense download`\n// fills. Nothing here fetches: an absent model degrades search to its other signals rather\n// than pulling 124 MB out of a command that reads like a query.\nexport function modelDir(model: string): string {\n  if (!HF_MODEL_ID.test(model)) return model;\n  return join(cacheRoot(), model.replace(/\\//g, '--'));\n}\n\n// Both files, so an interrupted download reads as absent and the next one resumes it.\nexport function hasModelFiles(model: string): boolean {\n  const dir = modelDir(model);\n  return MODEL_FILES.every((file) => existsSync(join(dir, file)));\n}\n\n// api providers have nothing to download, so they are never \"missing\" here; an unreachable\n// endpoint surfaces as an EMBED_MODEL error at call time instead.\nexport function modelPresent(cfg: Config): boolean {\n  const e = embedConfig(cfg);\n  if (!e) return false;\n  return e.type === 'api' || hasModelFiles(e.model);\n}\n\nfunction fetchToFile(url: string, dest: string): Promise<void> {\n  return fetch(url).then(async (res) => {\n    if (!res.ok) throw new SenseError('EMBED_MODEL', `model download failed: ${url} -> HTTP ${res.status}`);\n    writeFileSync(`${dest}.part`, Buffer.from(await res.arrayBuffer()));\n    renameSync(`${dest}.part`, dest);\n  });\n}\n\n// The only code path that touches the network for weights. `sense download` calls it; no\n// query ever does. Idempotent: a file already on disk is left alone.\nexport async function downloadModel(model: string, onFile?: (file: string, dir: string) => void): Promise<string> {\n  if (!isDownloadable(model)) {\n    throw new SenseError('EMBED_MODEL', `embed.model \"${model}\" is a local path, not a Hugging Face model id, so there is nothing to download; put model.safetensors and tokenizer.json in that directory, or name a model id like \"minishlab/potion-retrieval-32M\"`);\n  }\n  const dir = modelDir(model);\n  mkdirSync(dir, { recursive: true });\n  for (const file of MODEL_FILES) {\n    if (existsSync(join(dir, file))) continue;\n    onFile?.(file, dir);\n    await fetchToFile(`https://huggingface.co/${model}/resolve/main/${file}`, join(dir, file));\n  }\n  return dir;\n}\n\nasync function staticProvider(model: string): Promise<EmbedProvider> {\n  const dir = modelDir(model);\n  for (const file of MODEL_FILES) {\n    if (!existsSync(join(dir, file))) {\n      // A local path the caller controls gets told what is missing where; only a repo id can\n      // be fixed by downloading.\n      const fix = isDownloadable(model) ? 'run `sense download`' : `expected ${MODEL_FILENAMES} in that directory`;\n      throw new SenseError('EMBED_MODEL_MISSING', `embed model ${model} is not available (looked in ${dir}); ${fix}`);\n    }\n  }\n\n  const raw = readFileSync(join(dir, 'model.safetensors'));\n  const headerLen = Number(raw.readBigUInt64LE(0));\n  const header = JSON.parse(raw.subarray(8, 8 + headerLen).toString('utf8')) as Record<string, { dtype: string; shape: number[]; data_offsets: number[] }>;\n  const entry = Object.entries(header).find(([k]) => k !== '__metadata__');\n  if (!entry || entry[1].dtype !== 'F32') throw new SenseError('EMBED_MODEL', `${model}: expected an F32 safetensors matrix`);\n  const spec = entry[1];\n  const dims = spec.shape[1];\n  const dataStart = raw.byteOffset + 8 + headerLen + spec.data_offsets[0];\n  const matrix = dataStart % 4 === 0 ? new Float32Array(raw.buffer, dataStart, spec.shape[0] * dims) : new Float32Array(raw.buffer.slice(dataStart, dataStart + spec.shape[0] * dims * 4));\n\n  const tokenizerJson = JSON.parse(readFileSync(join(dir, 'tokenizer.json'), 'utf8'));\n  // Lazy import: the tokenizer loads only on the semantic path, never at CLI startup.\n  const { Tokenizer } = await import('@huggingface/tokenizers');\n  const tok = new Tokenizer(tokenizerJson, {});\n  const unkId = tokenizerJson.model?.vocab?.[tokenizerJson.model?.unk_token] ?? -1;\n\n  function one(text: string): Float32Array {\n    // The tokenizer yields undefined (not the unk id) for tokens outside the vocab; an\n    // undefined id would index the matrix at NaN and poison the whole mean-pool -- and the\n    // int8 conversion then stores the NaN vector as all zeros, silently. Keep integers only.\n    const ids = (tok.encode(text, { add_special_tokens: false }).ids as number[]).filter((id) => Number.isInteger(id) && id !== unkId);\n    const v = new Float32Array(dims);\n    if (ids.length === 0) return v;\n    for (const id of ids) {\n      const off = id * dims;\n      for (let d = 0; d < dims; d++) v[d] += matrix[off + d];\n    }\n    let norm = 0;\n    for (let d = 0; d < dims; d++) {\n      v[d] /= ids.length;\n      norm += v[d] * v[d];\n    }\n    norm = Math.sqrt(norm) + 1e-32;\n    for (let d = 0; d < dims; d++) v[d] /= norm;\n    return v;\n  }\n\n  return { id: `static:${model}`, dims, embed: async (texts) => texts.map(one) };\n}\n\n// --- api type: one POST against any OpenAI-compatible /embeddings endpoint ---\n\nasync function apiProvider(model: string, url: string | undefined, keyEnv: string | undefined): Promise<EmbedProvider> {\n  if (!url) throw new SenseError('EMBED_MODEL', 'features.embed.type \"api\" requires a url');\n  const base = url.replace(/\\/+$/, '');\n  const headers: Record<string, string> = { 'content-type': 'application/json' };\n  const key = keyEnv ? process.env[keyEnv] : undefined;\n  if (key) headers.authorization = `Bearer ${key}`;\n\n  async function post(texts: string[]): Promise<Float32Array[]> {\n    const res = await fetch(`${base}/embeddings`, { method: 'POST', headers, body: JSON.stringify({ model, input: texts }) });\n    if (!res.ok) throw new SenseError('EMBED_MODEL', `${base}/embeddings -> HTTP ${res.status}`);\n    const body = (await res.json()) as { data: Array<{ embedding: number[] }> };\n    return body.data.map((d) => Float32Array.from(d.embedding));\n  }\n\n  const dims = (await post(['dimension probe']))[0].length;\n  return { id: `api:${base}:${model}`, dims, embed: post };\n}\n\nconst providers = new Map<string, Promise<EmbedProvider>>();\n\nfunction getProvider(cfg: Config): Promise<EmbedProvider> {\n  const e = embedConfig(cfg);\n  if (!e) throw new SenseError('EMBED_DISABLED', 'this tree has no embedding model: add an \"embed\" block naming one to sense.config.json, then run `sense download`');\n  const sig = `${e.type}:${e.model}:${e.url ?? ''}`;\n  let p = providers.get(sig);\n  if (!p) {\n    p = e.type === 'api' ? apiProvider(e.model, e.url, e.key) : staticProvider(e.model);\n    providers.set(sig, p);\n  }\n  return p;\n}\n\n// Slice + re-normalize (Matryoshka); optionally round through int8 storage.\nfunction toStore(full: Float32Array, dims: number, int8: boolean): { v: Float32Array; scale: number } {\n  const v = new Float32Array(dims);\n  let norm = 0;\n  for (let d = 0; d < dims; d++) norm += full[d] * full[d];\n  norm = Math.sqrt(norm) + 1e-32;\n  for (let d = 0; d < dims; d++) v[d] = full[d] / norm;\n  if (!int8) return { v, scale: 1 };\n  let max = 0;\n  for (let d = 0; d < dims; d++) max = Math.max(max, Math.abs(v[d]));\n  return { v, scale: max / 127 || 1 };\n}\n\n// Embed rows whose vector is NULL, re-deriving chunk text from the files through the\n// same parse + chunker that stored the rows.\nexport async function embedPending(db: DatabaseSync, cfg: Config, baseDir: string): Promise<void> {\n  const provider = await getProvider(cfg); // throws EMBED_DISABLED before touching the table\n  const dirty = db.prepare('SELECT \"path\", chunk FROM embeddings WHERE vector IS NULL ORDER BY \"path\", chunk').all() as Array<{ path: string; chunk: number }>;\n  if (dirty.length === 0) return;\n  const storeDims = Math.min(STORE_DIMS, provider.dims);\n\n  const byPath = new Map<string, number[]>();\n  for (const row of dirty) {\n    const list = byPath.get(row.path) ?? [];\n    list.push(row.chunk);\n    byPath.set(row.path, list);\n  }\n\n  const jobs: Array<{ path: string; chunk: number; text: string }> = [];\n  for (const [path, chunkIdxs] of byPath) {\n    let chunks: Chunk[];\n    try {\n      // presets/embed are irrelevant here -- re-deriving chunk text for a doc that already\n      // has embeddings rows means the tree had an embedding model at reconcile time.\n      chunks = parseFile({ relPath: path, absPath: join(baseDir, path), mtimeMs: 0, ctimeMs: 0, size: 0, presets: [], embed: true }, [embed]).doc.extracted.embed as Chunk[];\n    } catch {\n      continue; // vanished since reconcile; the next reconcile removes its rows\n    }\n    for (const idx of chunkIdxs) if (chunks[idx]) jobs.push({ path, chunk: idx, text: chunks[idx].text });\n  }\n\n  const update = db.prepare('UPDATE embeddings SET scale = ?, vector = ? WHERE \"path\" = ? AND chunk = ?');\n  // The lazy build is the one long silence a first search hits (measured 23s at\n  // 26k notes); progress makes it distinguishable from a hang.\n  const report = progress('embedding chunks', jobs.length);\n  for (let i = 0; i < jobs.length; i += BATCH) {\n    const batch = jobs.slice(i, i + BATCH);\n    const vectors = await provider.embed(batch.map((j) => j.text));\n    db.exec('BEGIN');\n    try {\n      batch.forEach((job, j) => {\n        const { v, scale } = toStore(vectors[j], storeDims, true);\n        const q = new Int8Array(storeDims);\n        for (let d = 0; d < storeDims; d++) q[d] = Math.round(v[d] / scale);\n        update.run(scale, Buffer.from(q.buffer), job.path, job.chunk);\n      });\n      db.exec('COMMIT');\n    } catch (err) {\n      db.exec('ROLLBACK');\n      throw err;\n    }\n    report.tick(Math.min(i + BATCH, jobs.length));\n  }\n  report.finish();\n}\n\n// Dequantised int8 dot products land a little either side of a true cosine, so an identical\n// pair prints 1.001 and undermines a column whose whole job is being a bounded number.\nfunction asCosine(score: number): number {\n  return Math.round(Math.min(1, Math.max(-1, score)) * 1000) / 1000;\n}\n\n// Best chunk per file by cosine, its line range riding along; FTS5 operators are stripped as\n// lexical syntax. Similarity comes back because the fused score cannot express match quality,\n// and nearest-neighbour search always returns a neighbour however far away.\nexport async function semanticCandidates(db: DatabaseSync, cfg: Config, terms: string, fetch: number, allowed?: Set<string>): Promise<Array<{ path: string; lines: string; similarity: number }>> {\n  const baseDir = (cfg as Partial<ResolvedConfig>).baseDir;\n  if (!baseDir) throw new SenseError('EMBED_MODEL', 'semantic expansion needs a config with baseDir (use loadConfig/open)');\n  await embedPending(db, cfg, baseDir);\n\n  const provider = await getProvider(cfg);\n  const storeDims = Math.min(STORE_DIMS, provider.dims);\n  const text = (terms.match(/[\\p{L}\\p{N}]+/gu) ?? 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package/dist/cjs/features/sections.js

@@ -8,17 +8,15 @@ Object.defineProperty(exports, "sections", {
         return sections;
     }
 });
+var _fencests = require("../fences.js");
 // Headings outside fenced code blocks.
 function extract(raw) {
     var lines = raw.split('\n');
     var found = [];
-    var inFence = false;
+    var fence = (0, _fencests.fenceTracker)();
     for(var i = 0; i < lines.length; i++){
-        if (/^(```|~~~)/.test(lines[i])) {
-            inFence = !inFence;
-            continue;
-        }
-        if (inFence) continue;
+        if (fence.feed(lines[i])) continue;
+        if (fence.inFence) continue;
         var m = lines[i].match(/^(#{1,6}) +(.*)/);
         if (m) found.push({
             level: m[1].length,

package/dist/cjs/features/sections.js.map

@@ -1 +1 @@
-{"version":3,"sources":["/Users/kevin/Dev/OpenSource/ai/sensemaking/src/features/sections.ts"],"sourcesContent":["import type { Feature } from './types.ts';\n\n// sections(path, idx, level, heading, start_line, end_line, tokens): the heading outline,\n// 1-indexed over the raw file so a row is a direct Read range; tokens is a chars/4 estimate.\n\nexport interface Section {\n  level: number;\n  heading: string;\n  startLine: number;\n  endLine: number;\n  tokens: number;\n}\n\n// Headings outside fenced code blocks.\nfunction extract(raw: string): Section[] {\n  const lines = raw.split('\\n');\n  const found: Section[] = [];\n  let inFence = false;\n  for (let i = 0; i < lines.length; i++) {\n    if (/^(```|~~~)/.test(lines[i])) {\n      inFence = !inFence;\n      continue;\n    }\n    if (inFence) continue;\n    const m = lines[i].match(/^(#{1,6}) +(.*)/);\n    if (m) found.push({ level: m[1].length, heading: m[2].trim(), startLine: i + 1, endLine: lines.length, tokens: 0 });\n  }\n  for (let s = 0; s < found.length; s++) {\n    if (s + 1 < found.length) found[s].endLine = found[s + 1].startLine - 1;\n    const chars = lines.slice(found[s].startLine - 1, found[s].endLine).join('\\n').length;\n    found[s].tokens = Math.ceil(chars / 4);\n  }\n  return found;\n}\n\nexport const sections: Feature = {\n  name: 'sections',\n  schema(db) {\n    db.exec(`CREATE TABLE IF NOT EXISTS sections (\"path\" TEXT, idx INTEGER, level INTEGER, heading TEXT, start_line INTEGER, end_line INTEGER, tokens INTEGER, PRIMARY KEY (\"path\", idx))`);\n  },\n  extract,\n  remove(db, path) {\n    db.prepare('DELETE FROM sections WHERE \"path\" = ?').run(path);\n  },\n  store(db, path, extracted) {\n    const insert = db.prepare('INSERT INTO sections (\"path\", idx, level, heading, start_line, end_line, tokens) VALUES (?, ?, ?, ?, ?, ?, ?)');\n    (extracted as Section[]).forEach((s, idx) => insert.run(path, idx, s.level, s.heading, s.startLine, s.endLine, s.tokens));\n  },\n};\n"],"names":["sections","extract","raw","lines","split","found","inFence","i","length","test","m","match","push","level","heading","trim","startLine","endLine","tokens","s","chars","slice","join","Math","ceil","name","schema","db","exec","remove","path","prepare","run","store","extracted","insert","forEach","idx"],"mappings":";;;;+BAmCaA;;;eAAAA;;;AAtBb,uCAAuC;AACvC,SAASC,QAAQC,GAAW;IAC1B,IAAMC,QAAQD,IAAIE,KAAK,CAAC;IACxB,IAAMC,QAAmB,EAAE;IAC3B,IAAIC,UAAU;IACd,IAAK,IAAIC,IAAI,GAAGA,IAAIJ,MAAMK,MAAM,EAAED,IAAK;QACrC,IAAI,aAAaE,IAAI,CAACN,KAAK,CAACI,EAAE,GAAG;YAC/BD,UAAU,CAACA;YACX;QACF;QACA,IAAIA,SAAS;QACb,IAAMI,IAAIP,KAAK,CAACI,EAAE,CAACI,KAAK,CAAC;QACzB,IAAID,GAAGL,MAAMO,IAAI,CAAC;YAAEC,OAAOH,CAAC,CAAC,EAAE,CAACF,MAAM;YAAEM,SAASJ,CAAC,CAAC,EAAE,CAACK,IAAI;YAAIC,WAAWT,IAAI;YAAGU,SAASd,MAAMK,MAAM;YAAEU,QAAQ;QAAE;IACnH;IACA,IAAK,IAAIC,IAAI,GAAGA,IAAId,MAAMG,MAAM,EAAEW,IAAK;QACrC,IAAIA,IAAI,IAAId,MAAMG,MAAM,EAAEH,KAAK,CAACc,EAAE,CAACF,OAAO,GAAGZ,KAAK,CAACc,IAAI,EAAE,CAACH,SAAS,GAAG;QACtE,IAAMI,QAAQjB,MAAMkB,KAAK,CAAChB,KAAK,CAACc,EAAE,CAACH,SAAS,GAAG,GAAGX,KAAK,CAACc,EAAE,CAACF,OAAO,EAAEK,IAAI,CAAC,MAAMd,MAAM;QACrFH,KAAK,CAACc,EAAE,CAACD,MAAM,GAAGK,KAAKC,IAAI,CAACJ,QAAQ;IACtC;IACA,OAAOf;AACT;AAEO,IAAML,WAAoB;IAC/ByB,MAAM;IACNC,QAAAA,SAAAA,OAAOC,EAAE;QACPA,GAAGC,IAAI,CAAC;IACV;IACA3B,SAAAA;IACA4B,QAAAA,SAAAA,OAAOF,EAAE,EAAEG,IAAI;QACbH,GAAGI,OAAO,CAAC,yCAAyCC,GAAG,CAACF;IAC1D;IACAG,OAAAA,SAAAA,MAAMN,EAAE,EAAEG,IAAI,EAAEI,SAAS;QACvB,IAAMC,SAASR,GAAGI,OAAO,CAAC;QACzBG,UAAwBE,OAAO,CAAC,SAACjB,GAAGkB;mBAAQF,OAAOH,GAAG,CAACF,MAAMO,KAAKlB,EAAEN,KAAK,EAAEM,EAAEL,OAAO,EAAEK,EAAEH,SAAS,EAAEG,EAAEF,OAAO,EAAEE,EAAED,MAAM;;IACzH;AACF"}
+{"version":3,"sources":["/Users/kevin/Dev/OpenSource/ai/sensemaking/src/features/sections.ts"],"sourcesContent":["import { fenceTracker } from '../fences.ts';\nimport type { Feature } from './types.ts';\n\n// sections(path, idx, level, heading, start_line, end_line, tokens): the heading outline,\n// 1-indexed over the raw file so a row is a direct Read range; tokens is a chars/4 estimate.\n\nexport interface Section {\n  level: number;\n  heading: string;\n  startLine: number;\n  endLine: number;\n  tokens: number;\n}\n\n// Headings outside fenced code blocks.\nfunction extract(raw: string): Section[] {\n  const lines = raw.split('\\n');\n  const found: Section[] = [];\n  const fence = fenceTracker();\n  for (let i = 0; i < lines.length; i++) {\n    if (fence.feed(lines[i])) continue;\n    if (fence.inFence) continue;\n    const m = lines[i].match(/^(#{1,6}) +(.*)/);\n    if (m) found.push({ level: m[1].length, heading: m[2].trim(), startLine: i + 1, endLine: lines.length, tokens: 0 });\n  }\n  for (let s = 0; s < found.length; s++) {\n    if (s + 1 < found.length) found[s].endLine = found[s + 1].startLine - 1;\n    const chars = lines.slice(found[s].startLine - 1, found[s].endLine).join('\\n').length;\n    found[s].tokens = Math.ceil(chars / 4);\n  }\n  return found;\n}\n\nexport const sections: Feature = {\n  name: 'sections',\n  schema(db) {\n    db.exec(`CREATE TABLE IF NOT EXISTS sections (\"path\" TEXT, idx INTEGER, level INTEGER, heading TEXT, start_line INTEGER, end_line INTEGER, tokens INTEGER, PRIMARY KEY (\"path\", idx))`);\n  },\n  extract,\n  remove(db, path) {\n    db.prepare('DELETE FROM sections WHERE \"path\" = ?').run(path);\n  },\n  store(db, path, extracted) {\n    const insert = db.prepare('INSERT INTO sections (\"path\", idx, level, heading, start_line, end_line, tokens) VALUES (?, ?, ?, ?, ?, ?, ?)');\n    (extracted as Section[]).forEach((s, idx) => insert.run(path, idx, s.level, s.heading, s.startLine, s.endLine, s.tokens));\n  },\n};\n"],"names":["sections","extract","raw","lines","split","found","fence","fenceTracker","i","length","feed","inFence","m","match","push","level","heading","trim","startLine","endLine","tokens","s","chars","slice","join","Math","ceil","name","schema","db","exec","remove","path","prepare","run","store","extracted","insert","forEach","idx"],"mappings":";;;;+BAiCaA;;;eAAAA;;;wBAjCgB;AAc7B,uCAAuC;AACvC,SAASC,QAAQC,GAAW;IAC1B,IAAMC,QAAQD,IAAIE,KAAK,CAAC;IACxB,IAAMC,QAAmB,EAAE;IAC3B,IAAMC,QAAQC,IAAAA,sBAAY;IAC1B,IAAK,IAAIC,IAAI,GAAGA,IAAIL,MAAMM,MAAM,EAAED,IAAK;QACrC,IAAIF,MAAMI,IAAI,CAACP,KAAK,CAACK,EAAE,GAAG;QAC1B,IAAIF,MAAMK,OAAO,EAAE;QACnB,IAAMC,IAAIT,KAAK,CAACK,EAAE,CAACK,KAAK,CAAC;QACzB,IAAID,GAAGP,MAAMS,IAAI,CAAC;YAAEC,OAAOH,CAAC,CAAC,EAAE,CAACH,MAAM;YAAEO,SAASJ,CAAC,CAAC,EAAE,CAACK,IAAI;YAAIC,WAAWV,IAAI;YAAGW,SAAShB,MAAMM,MAAM;YAAEW,QAAQ;QAAE;IACnH;IACA,IAAK,IAAIC,IAAI,GAAGA,IAAIhB,MAAMI,MAAM,EAAEY,IAAK;QACrC,IAAIA,IAAI,IAAIhB,MAAMI,MAAM,EAAEJ,KAAK,CAACgB,EAAE,CAACF,OAAO,GAAGd,KAAK,CAACgB,IAAI,EAAE,CAACH,SAAS,GAAG;QACtE,IAAMI,QAAQnB,MAAMoB,KAAK,CAAClB,KAAK,CAACgB,EAAE,CAACH,SAAS,GAAG,GAAGb,KAAK,CAACgB,EAAE,CAACF,OAAO,EAAEK,IAAI,CAAC,MAAMf,MAAM;QACrFJ,KAAK,CAACgB,EAAE,CAACD,MAAM,GAAGK,KAAKC,IAAI,CAACJ,QAAQ;IACtC;IACA,OAAOjB;AACT;AAEO,IAAML,WAAoB;IAC/B2B,MAAM;IACNC,QAAAA,SAAAA,OAAOC,EAAE;QACPA,GAAGC,IAAI,CAAC;IACV;IACA7B,SAAAA;IACA8B,QAAAA,SAAAA,OAAOF,EAAE,EAAEG,IAAI;QACbH,GAAGI,OAAO,CAAC,yCAAyCC,GAAG,CAACF;IAC1D;IACAG,OAAAA,SAAAA,MAAMN,EAAE,EAAEG,IAAI,EAAEI,SAAS;QACvB,IAAMC,SAASR,GAAGI,OAAO,CAAC;QACzBG,UAAwBE,OAAO,CAAC,SAACjB,GAAGkB;mBAAQF,OAAOH,GAAG,CAACF,MAAMO,KAAKlB,EAAEN,KAAK,EAAEM,EAAEL,OAAO,EAAEK,EAAEH,SAAS,EAAEG,EAAEF,OAAO,EAAEE,EAAED,MAAM;;IACzH;AACF"}

package/dist/cjs/features/tags.js

@@ -8,6 +8,7 @@ Object.defineProperty(exports, "tags", {
         return tags;
     }
 });
+var _fencests = require("../fences.js");
 function _array_like_to_array(arr, len) {
     if (len == null || len > arr.length) len = arr.length;
     for(var i = 0, arr2 = new Array(len); i < len; i++)arr2[i] = arr[i];
@@ -36,14 +37,91 @@ function _unsupported_iterable_to_array(o, minLen) {
 // tags(path, tag): Obsidian's file.tags grain -- frontmatter list/string tags plus inline
 // #tags from the prose, deduplicated, source not distinguished. Nested tags store full
 // (book/scifi); `tag = 'book' OR tag LIKE 'book/%'` is how a caller matches the parent too.
-var FENCE_RE = /^(```|~~~)/;
-var INLINE_CODE_RE = /`[^`]*`/g;
 // Obsidian treats [[#Heading]] as a same-note link, not a tag.
 var WIKILINK_RE = /\[\[.*?\]\]/g; // to the first ]], so a heading holding a lone ] still masks
 // Obsidian doesn't read tags inside HTML markup.
 var HTML_TAG_RE = /<\/?[a-zA-Z][^>]*>/g; // tag-shaped only: a comparison's `< 5` must not open a span
 // Anchors on start-of-line or a preceding whitespace/(/[ so `a#b` and URL fragments don't count.
 var INLINE_TAG_RE = 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"gu");
+// A markdown link destination `](...)` -- `[text](#anchor)` is a same-page link, not a tag.
+var LINK_DEST_RE = /\]\((?:[^()]|\([^()]*\))*\)/g; // one paren-nesting level, as CommonMark destinations allow: (https://x/a_(b)#frag)
+// CommonMark's HTML-block type-6 list (fixed by the spec, not a drifting enumeration): a line
+// starting with an open or close tag of one of these, at column 0, opens a block that swallows
+// following lines -- including any #tag in them -- until a blank line closes it.
+var HTML_BLOCK_TAGS = new Set([
+    'address',
+    'article',
+    'aside',
+    'base',
+    'basefont',
+    'blockquote',
+    'body',
+    'caption',
+    'center',
+    'col',
+    'colgroup',
+    'dd',
+    'details',
+    'dialog',
+    'dir',
+    'div',
+    'dl',
+    'dt',
+    'fieldset',
+    'figcaption',
+    'figure',
+    'footer',
+    'form',
+    'frame',
+    'frameset',
+    'h1',
+    'h2',
+    'h3',
+    'h4',
+    'h5',
+    'h6',
+    'head',
+    'header',
+    'hr',
+    'html',
+    'iframe',
+    'legend',
+    'li',
+    'link',
+    'main',
+    'menu',
+    'menuitem',
+    'nav',
+    'noframes',
+    'ol',
+    'optgroup',
+    'option',
+    'p',
+    'param',
+    'search',
+    'section',
+    'summary',
+    'table',
+    'tbody',
+    'td',
+    'tfoot',
+    'th',
+    'thead',
+    'title',
+    'tr',
+    'track',
+    'ul'
+]);
+// Type-1 blocks (script/pre/style/textarea): closes on the line holding the matching end tag,
+// not on a blank line, and that line is the last one skipped.
+var HTML_PRE_TAGS = new Set([
+    'script',
+    'pre',
+    'style',
+    'textarea'
+]);
+// An opening or closing tag at column 0, tag name captured for the lookups above.
+var HTML_BLOCK_OPEN_RE = /^<\/?([a-zA-Z][a-zA-Z0-9]*)(?:[ \t]|\/?>|$)/;
 // Strips a leading # (frontmatter entries may carry one) and a trailing /; rejects an
 // all-digit result -- a tag needs at least one non-digit character.
 function normalizeTag(raw) {
@@ -83,26 +161,101 @@ function frontmatterTags(data) {
     }
     return found;
 }
-// #tag tokens outside fenced code blocks, inline code spans, wikilinks, and HTML tags.
+// A code span opens on a run of N backticks and closes at the next run of exactly N -- a
+// shorter or longer run in between is literal text, not a delimiter (CommonMark code spans).
+// Masked with spaces so column positions and tag-boundary whitespace are unaffected.
+function maskCodeSpans(line) {
+    var out = '';
+    var i = 0;
+    while(i < line.length){
+        if (line[i] !== '`') {
+            out += line[i];
+            i++;
+            continue;
+        }
+        var j = i;
+        while(line[j] === '`')j++;
+        var n = j - i;
+        var k = j;
+        var closeStart = -1;
+        var closeEnd = -1;
+        while(k < line.length){
+            if (line[k] !== '`') {
+                k++;
+                continue;
+            }
+            var m = k;
+            while(line[m] === '`')m++;
+            if (m - k === n) {
+                closeStart = k;
+                closeEnd = m;
+                break;
+            }
+            k = m;
+        }
+        if (closeStart >= 0) {
+            out += ' '.repeat(closeEnd - i);
+            i = closeEnd;
+        } else {
+            out += line.slice(i, j);
+            i = j;
+        }
+    }
+    return out;
+}
+// #tag tokens outside fenced code blocks, inline code spans, wikilinks, HTML tags, HTML blocks,
+// and link destinations.
 function inlineTags(body) {
     var found = [];
-    var inFence = false;
+    var fence = (0, _fencests.fenceTracker)();
+    var inHtmlBlock = false;
+    var htmlBlockClose = null; // set while inside a type-1 (script/pre/style/textarea) block
     var _iteratorNormalCompletion = true, _didIteratorError = false, _iteratorError = undefined;
     try {
         for(var _iterator = body.split('\n')[Symbol.iterator](), _step; !(_iteratorNormalCompletion = (_step = _iterator.next()).done); _iteratorNormalCompletion = true){
             var line = _step.value;
-            if (FENCE_RE.test(line)) {
-                inFence = !inFence;
+            if (inHtmlBlock) {
+                // A fence-like line here is still HTML-block content -- the block wins until it closes.
+                if (htmlBlockClose) {
+                    if (htmlBlockClose.test(line)) {
+                        inHtmlBlock = false;
+                        htmlBlockClose = null;
+                    }
+                } else if (/^[ \t>]*$/.test(line)) {
+                    inHtmlBlock = false;
+                }
                 continue;
             }
-            if (inFence) continue;
+            if (fence.feed(line)) continue;
+            if (fence.inFence) continue;
+            // Indented or blockquoted HTML blocks still swallow their content in Obsidian, so the
+            // opener test runs after stripping leading whitespace and > markers.
+            var stripped = line.replace(/^[ \t>]*/, '');
+            if (stripped[0] === '<') {
+                var openMatch = HTML_BLOCK_OPEN_RE.exec(stripped);
+                if (openMatch) {
+                    var tagName = openMatch[1].toLowerCase();
+                    var isClosingTag = stripped[1] === '/';
+                    if (!isClosingTag && HTML_PRE_TAGS.has(tagName)) {
+                        inHtmlBlock = true;
+                        // Any of the four type-1 closers ends the block, not only the tag that opened it.
+                        htmlBlockClose = /<\/(?:script|pre|style|textarea)>/i;
+                        continue;
+                    }
+                    if (HTML_BLOCK_TAGS.has(tagName)) {
+                        inHtmlBlock = true;
+                        continue;
+                    }
+                }
+            }
             if (!line.includes('#')) continue; // most lines; skip the regex work
-            var cleaned = line.includes('`') ? line.replace(INLINE_CODE_RE, function(m) {
-                return ' '.repeat(m.length);
-            }) : line;
+            var cleaned = line.includes('`') ? maskCodeSpans(line) : line;
             if (cleaned.includes('[[')) cleaned = cleaned.replace(WIKILINK_RE, function(m) {
                 return ' '.repeat(m.length);
             });
+            if (cleaned.includes('](')) cleaned = cleaned.replace(LINK_DEST_RE, function(m) {
+                return ' '.repeat(m.length);
+            });
             if (cleaned.includes('<')) cleaned = cleaned.replace(HTML_TAG_RE, function(m) {
                 return ' '.repeat(m.length);
             });