@maadb/core 0.7.18 → 0.8.1

package/dist/engine/indexing.js

@@ -1,14 +1,14 @@
 // ============================================================================
 // Indexing — indexAll, indexFile, processDocument, reindex
 // ============================================================================
-import { existsSync, statSync } from 'node:fs';
-import { readFile } from 'node:fs/promises';
+import { existsSync } from 'node:fs';
+import { readFile, stat } from 'node:fs/promises';
 import { createHash } from 'node:crypto';
 import path from 'node:path';
 import { ok, err, singleErr } from '../errors.js';
 import { logger } from './logger.js';
 import { docId as toDocId, docType as toDocType, filePath as toFilePath, } from '../types.js';
-import { parseDocument } from '../parser/index.js';
+import { parseDocument, parseDocumentFromContent } from '../parser/index.js';
 import { validateFrontmatter } from '../schema/index.js';
 import { extract } from '../extractor/index.js';
 import { collectMarkdownFiles, computeNumericValue, toCanonicalRelPath } from './helpers.js';
@@ -34,6 +34,7 @@ const SCHEMA_FP_KEY_PREFIX = 'schema_index_fp:';
 export async function indexAll(ctx, opts) {
     const force = opts?.force ?? false;
     const result = { scanned: 0, indexed: 0, skipped: 0, errors: [] };
+    const warnings = [];
     // 0.7.4 — Detect schema-index changes per type. Types whose fingerprint
     // changed (or was never recorded) join `dirtyTypes`, which overrides the
     // file-hash skip path below so docs of those types reindex even if their
@@ -54,15 +55,51 @@ export async function indexAll(ctx, opts) {
         if (stored !== fp)
             dirtyTypes.add(typeName);
     }
-    const storedHashes = force ? new Map() : ctx.backend.getAllFileHashes();
+    // 0.8.1 — types with at least one per-doc index error this run. Their
+    // schema fingerprints are NOT persisted below, so a dirty type whose forced
+    // rebuild partially failed stays dirty and retries on the next pass
+    // (previously the fingerprint persisted anyway and the failed docs
+    // hash-skipped forever).
+    const typesWithErrors = new Set();
+    // 0.8.1 — single snapshot serves both the skip-by-hash lookup and the
+    // stale-row sweep (previously fetched twice — two full-table scans, and
+    // the force path threw the first away).
+    const storedHashes = ctx.backend.getAllFileHashes();
     const filesOnDisk = new Set();
+    const byteCap = maxDocBytes();
+    const docCountByType = ctx.backend.getStats().documentCountByType;
     for (const [typeName, regType] of ctx.registry.types) {
         const isTypeDirty = dirtyTypes.has(typeName);
         const dirPath = path.join(ctx.projectRoot, regType.path);
-        if (!existsSync(dirPath))
+        if (!existsSync(dirPath)) {
+            // 0.8.1 — a missing registered path is only noise for a type with no
+            // docs yet; with indexed rows it is the exact registry-mismatch shape
+            // that made the sweep prune valid docs (kebab vs underscore dir).
+            const indexedCount = docCountByType[typeName] ?? 0;
+            if (indexedCount > 0) {
+                warnings.push(`registered path "${regType.path}" for type "${typeName}" does not exist on disk, ` +
+                    `but the index holds ${indexedCount} doc(s) of this type — check the path mapping in _registry/object_types.yaml`);
+            }
+            continue;
+        }
+        const collected = await collectMarkdownFiles(dirPath);
+        if (collected.usedFallback) {
+            warnings.push(`glob scan failed under "${regType.path}" — recursive readdir fallback used; ` +
+                `if this repeats, check the Node runtime's fs.promises.glob support`);
+        }
+        // 0.8.1 — empty registered dir while the index holds rows of the type:
+        // the registry points somewhere the docs aren't (the registry loader
+        // creates missing dirs at load, so a path mismatch usually presents as
+        // an empty dir here rather than a missing one).
+        if (collected.files.length === 0) {
+            const indexedCount = docCountByType[typeName] ?? 0;
+            if (indexedCount > 0) {
+                warnings.push(`registered path "${regType.path}" for type "${typeName}" contains no markdown files, ` +
+                    `but the index holds ${indexedCount} doc(s) of this type — check the path mapping in _registry/object_types.yaml`);
+            }
             continue;
-        const files = await collectMarkdownFiles(dirPath);
-        for (const file of files) {
+        }
+        for (const file of collected.files) {
             result.scanned++;
             // 0.7.12 — canonical (forward-slash) form for both the skip-by-hash
             // lookup against getAllFileHashes (which now stores '/' post-0.7.12)
@@ -70,10 +107,30 @@ export async function indexAll(ctx, opts) {
             const fp = toFilePath(toCanonicalRelPath(ctx.projectRoot, file));
             const absPath = toFilePath(file);
             filesOnDisk.add(fp);
+            // 0.8.1 — stat before read: an over-cap file must not be read at all
+            // (reading it just to hash-skip defeats the byte backstop), and reading
+            // once here lets indexFile parse from content instead of re-reading.
+            let raw;
+            let overCap = false;
+            if (byteCap > 0) {
+                try {
+                    overCap = (await stat(file)).size > byteCap;
+                }
+                catch {
+                    // stat failure falls through; indexFile surfaces the real error.
+                }
+            }
+            if (!overCap) {
+                try {
+                    raw = await readFile(file, 'utf-8');
+                }
+                catch {
+                    // read failure falls through; indexFile surfaces FILE_READ_ERROR.
+                }
+            }
             // Skip-by-hash only applies when neither --force nor a schema-fingerprint
             // change is in play. Otherwise we rebuild even if disk content matches.
-            if (!force && !isTypeDirty) {
-                const raw = await readFile(file, 'utf-8');
+            if (raw !== undefined && !force && !isTypeDirty) {
                 const currentHash = createHash('sha256').update(raw).digest('hex');
                 const storedHash = storedHashes.get(fp);
                 if (storedHash === currentHash) {
@@ -81,7 +138,7 @@ export async function indexAll(ctx, opts) {
                     continue;
                 }
             }
-            const indexResult = await indexFile(ctx, absPath);
+            const indexResult = await indexFile(ctx, absPath, raw !== undefined ? { raw } : undefined);
             if (indexResult.ok) {
                 result.indexed++;
                 if (indexResult.value.annotationsTruncated) {
@@ -89,29 +146,58 @@ export async function indexAll(ctx, opts) {
                 }
             }
             else {
+                typesWithErrors.add(typeName);
                 result.errors.push(...indexResult.errors);
             }
         }
     }
-    // Remove stale backend records
-    const allStoredPaths = ctx.backend.getAllFileHashes();
-    for (const [storedPath] of allStoredPaths) {
-        if (!filesOnDisk.has(storedPath)) {
-            const doc = ctx.backend.getDocumentByPath(storedPath);
-            if (doc) {
-                ctx.backend.removeDocument(doc.docId);
-            }
+    // Remove stale backend records — but never a row whose file still exists on
+    // disk. A stale row with a live file means the file sits outside every
+    // scanned registered path (registry path mismatch, glob failure, moved
+    // directory): pruning it silently orphans valid data, so keep the row and
+    // warn instead. Only rows whose files are genuinely gone are removed.
+    let pruned = 0;
+    const keptByType = new Map();
+    for (const [storedPath] of storedHashes) {
+        if (filesOnDisk.has(storedPath))
+            continue;
+        const doc = ctx.backend.getDocumentByPath(storedPath);
+        if (!doc)
+            continue;
+        // Row already re-pointed at a scanned file this run (separator/case
+        // migration of a legacy path) — nothing stale about it.
+        if (filesOnDisk.has(doc.filePath))
+            continue;
+        if (existsSync(path.join(ctx.projectRoot, storedPath))) {
+            keptByType.set(doc.docType, (keptByType.get(doc.docType) ?? 0) + 1);
+            continue;
         }
+        ctx.backend.removeDocument(doc.docId);
+        pruned++;
+    }
+    for (const [typeName, count] of keptByType) {
+        const regPath = ctx.registry.types.get(toDocType(typeName))?.path ?? '(unregistered)';
+        warnings.push(`kept ${count} index row(s) of type "${typeName}" whose files exist on disk but were not scanned ` +
+            `(registered path: "${regPath}") — not pruned; check the path mapping in _registry/object_types.yaml`);
     }
     // 0.7.4 — Persist current fingerprints AFTER successful rebuild so a
     // crash mid-reindex leaves the prior fingerprint in place; next run sees
-    // the diff again and retries.
+    // the diff again and retries. 0.8.1 — same retry contract for per-doc
+    // failures: types that errored keep their old fingerprint (stay dirty).
     for (const [typeName, fp] of currentFingerprints) {
+        if (typesWithErrors.has(typeName))
+            continue;
         ctx.backend.setMeta(`${SCHEMA_FP_KEY_PREFIX}${typeName}`, fp);
     }
     if (dirtyTypes.size > 0) {
         result.rebuiltTypes = [...dirtyTypes].sort();
     }
+    if (pruned > 0)
+        result.pruned = pruned;
+    if (warnings.length > 0) {
+        result.warnings = warnings;
+        logger.degraded('engine', 'index_scan_warnings', `indexAll completed with ${warnings.length} warning(s) — the registry and the on-disk layout disagree`, { warnings });
+    }
     // 0.7.17 — refresh planner statistics after a rebuild touched rows. Skipped
     // on a no-op pass (everything hash-skipped) so steady-state reindex polling
     // doesn't pay for an ANALYZE that would change nothing.
@@ -162,22 +248,38 @@ function maxDocAnnotations() {
         return DEFAULT_MAX_DOC_ANNOTATIONS;
     return n; // 0 = disabled
 }
-export async function indexFile(ctx, absolutePath) {
+export async function indexFile(ctx, absolutePath, opts) {
     // Backstop: a stat is cheap, and reading + line-splitting a multi-hundred-MB
     // file is itself a heap risk before any extraction cap can apply. Skip those.
+    // 0.8.1 — when the caller already read the file (indexAll's single-read
+    // path), size the in-memory content instead of re-statting.
     const byteCap = maxDocBytes();
     if (byteCap > 0) {
         let sizeBytes = 0;
-        try {
-            sizeBytes = statSync(absolutePath).size;
+        if (opts?.raw !== undefined) {
+            sizeBytes = Buffer.byteLength(opts.raw, 'utf-8');
         }
-        catch {
-            // stat failure falls through to parseDocument, which surfaces the real
-            // FILE_READ_ERROR with proper location info.
-            sizeBytes = 0;
+        else {
+            try {
+                sizeBytes = (await stat(absolutePath)).size;
+            }
+            catch {
+                // stat failure falls through to parseDocument, which surfaces the real
+                // FILE_READ_ERROR with proper location info.
+                sizeBytes = 0;
+            }
         }
         if (sizeBytes > byteCap) {
-            logger.degraded('engine', 'doc_too_large', `skipped oversized document (${sizeBytes} bytes > cap ${byteCap}); too large to read safely`, { file: absolutePath, sizeBytes, capBytes: byteCap });
+            // 0.8.1 — a previously indexed doc that grew past the cap keeps serving
+            // its last indexed content: the row is deliberately retained (the doc
+            // stays findable) but flagged partial so the staleness is queryable
+            // instead of invisible.
+            const rel = toCanonicalRelPath(ctx.projectRoot, absolutePath);
+            const existingRow = ctx.backend.getDocumentByPath(toFilePath(rel));
+            if (existingRow)
+                ctx.backend.markDocumentStale(existingRow.docId);
+            logger.degraded('engine', 'doc_too_large', `skipped oversized document (${sizeBytes} bytes > cap ${byteCap}); too large to read safely` +
+                (existingRow ? '; existing index row retained at its last indexed content and flagged partial' : ''), { file: absolutePath, sizeBytes, capBytes: byteCap, staleRowRetained: existingRow !== null });
             return singleErr('DOC_TOO_LARGE', `Document ${absolutePath} is ${sizeBytes} bytes, over the ${byteCap}-byte read cap (MAAD_MAX_DOC_BYTES). Skipped to protect the engine; split the document or raise the cap with matching heap headroom.`, { file: absolutePath, line: 0, col: 0 }, { sizeBytes, capBytes: byteCap });
         }
     }
@@ -185,7 +287,14 @@ export async function indexFile(ctx, absolutePath) {
     // build an unbounded object/relationship set. The doc still indexes (record
     // + frontmatter + capped body) and stays findable.
     const annoCap = maxDocAnnotations();
-    const parsed = await parseDocument(absolutePath, ctx.registry.subtypeMap, annoCap > 0 ? { maxAnnotations: annoCap } : undefined);
+    // 0.8.0 — request per-block text only when semantic indexing is on, so a
+    // non-semantic parse pays nothing for the extra slicing.
+    const parseOpts = { includeBlockText: ctx.semanticEnabled };
+    if (annoCap > 0)
+        parseOpts.maxAnnotations = annoCap;
+    const parsed = opts?.raw !== undefined
+        ? parseDocumentFromContent(opts.raw, absolutePath, ctx.registry.subtypeMap, parseOpts)
+        : await parseDocument(absolutePath, ctx.registry.subtypeMap, parseOpts);
     if (!parsed.ok)
         return parsed;
     if (parsed.value.annotationsTruncated) {
@@ -223,6 +332,9 @@ export function processDocument(ctx, parsed) {
                 name: fieldName,
                 value,
                 fieldType: fieldDef.type,
+                // 0.8.1 — carried through so list-of-number/amount items get real
+                // numeric index values (previously hardcoded to string → null).
+                itemType: fieldDef.itemType,
                 role: fieldDef.role,
                 indexed: fieldDef.index,
             };
@@ -243,6 +355,39 @@ export function processDocument(ctx, parsed) {
     // canonicalization; reuse it across all write-path sites.
     const relativePath = toCanonicalRelPath(ctx.projectRoot, parsed.filePath);
     const existing = ctx.backend.getDocument(bound.docId);
+    // 0.8.1 — duplicate-docId guard on the index path. Two live files sharing a
+    // doc_id previously collapsed silently: the second one scanned REPLACEd the
+    // first's row (registry-iteration order decided the winner) and the loser
+    // stayed on disk unindexed. The write path has always rejected this
+    // (writes.ts DUPLICATE_DOC_ID); the index path now does too. A row whose old
+    // file is gone is a legitimate move and falls through to the normal update.
+    // Paths compare in canonical forward-slash form (legacy pre-0.7.12 rows
+    // store backslash), case-insensitively on Windows/macOS where one on-disk
+    // file answers to both casings — either difference alone is the SAME file
+    // lazily migrating, not a collision.
+    if (existing) {
+        const caseFold = process.platform === 'win32' || process.platform === 'darwin';
+        const normalize = (p) => {
+            const canonical = p.replaceAll('\\', '/');
+            return caseFold ? canonical.toLowerCase() : canonical;
+        };
+        if (normalize(existing.filePath) !== normalize(relativePath)) {
+            const oldAbs = path.join(ctx.projectRoot, existing.filePath);
+            if (existsSync(oldAbs)) {
+                return singleErr('DUPLICATE_DOC_ID', `doc_id "${bound.docId}" is claimed by two files: "${existing.filePath}" (indexed) and "${relativePath}". ` +
+                    `The indexed row was left unchanged; fix the duplicate doc_id in one of the files and reindex.`, { file: parsed.filePath, line: 0, col: 0 }, { indexedPath: existing.filePath, conflictingPath: relativePath });
+            }
+        }
+    }
+    // 0.8.1 — doc_id changed in place (same file, new id in frontmatter). The
+    // superseded row is removed explicitly and audibly — previously INSERT OR
+    // REPLACE resolved the file_path conflict by silently deleting it as a side
+    // effect (and could destroy an unrelated doc's row the same way).
+    const existingByPath = ctx.backend.getDocumentByPath(toFilePath(relativePath));
+    if (existingByPath && existingByPath.docId !== bound.docId) {
+        logger.info('engine', 'doc_id_changed_in_place', `doc_id at "${relativePath}" changed from "${existingByPath.docId}" to "${bound.docId}"; superseded index row removed`, { filePath: relativePath, oldDocId: existingByPath.docId, newDocId: bound.docId });
+        ctx.backend.removeDocument(existingByPath.docId);
+    }
     // Only bump version when file content actually changed — reindex of unchanged files preserves version
     const contentChanged = !existing || existing.fileHash !== parsed.fileHash;
     const version = existing
@@ -270,6 +415,10 @@ export function processDocument(ctx, parsed) {
         // invalid records instead of re-reading every file. `validation` was
         // computed above in mode 'index'.
         valid: validation.valid,
+        // 0.8.1 — persist the annotation-cap state so "which docs indexed with
+        // partial body objects" survives the run (previously only a transient
+        // IndexResult counter + a log line). Clean reindex clears it.
+        partial: parsed.annotationsTruncated === true,
     };
     const fieldIndex = [];
     for (const [name, field] of Object.entries(validatedFields)) {
@@ -283,7 +432,10 @@ export function processDocument(ctx, parsed) {
                     fieldIndex.push({
                         name,
                         value: itemValue,
-                        numericValue: computeNumericValue(item, 'string'),
+                        // 0.8.1 — use the list's item_type (was hardcoded 'string', so
+                        // list-of-number/amount items always indexed numericValue null
+                        // and never matched numeric range filters).
+                        numericValue: computeNumericValue(item, field.itemType ?? 'string'),
                         type: field.fieldType,
                     });
                 }
@@ -301,7 +453,33 @@ export function processDocument(ctx, parsed) {
             }
         }
     }
-    ctx.backend.materializeDocument(docRecord, extraction.objects, extraction.relationships, parsed.blocks, fieldIndex);
+    // 0.8.0 — per-block text for the semantic index (FTS + embed queue), persisted
+    // atomically inside the materialize transaction. Only built when semantic is
+    // on and the parser produced block text; empty blocks (heading-only) are
+    // skipped. Single-block docs fall back naturally to one whole-doc block.
+    let semanticBlocks;
+    if (ctx.semanticEnabled && parsed.blockTexts) {
+        const texts = parsed.blockTexts;
+        semanticBlocks = [];
+        parsed.blocks.forEach((b, i) => {
+            const text = texts[i] ?? '';
+            if (text.length === 0)
+                return;
+            semanticBlocks.push({ blockOrd: i, blockId: b.id, heading: b.heading, text });
+        });
+    }
+    // 0.8.1 — the targeted upsert in putDocument raises SQLITE_CONSTRAINT on a
+    // file_path conflict instead of silently deleting the other doc's row. The
+    // guards above resolve every legitimate case, so a throw here is a real
+    // collision (or backend fault) that must surface as an indexing error, not
+    // escape the engine's Result contract.
+    try {
+        ctx.backend.materializeDocument(docRecord, extraction.objects, extraction.relationships, parsed.blocks, fieldIndex, semanticBlocks);
+    }
+    catch (e) {
+        const message = e instanceof Error ? e.message : String(e);
+        return singleErr('BACKEND_ERROR', `Failed to materialize "${bound.docId}" (${relativePath}): ${message}`, { file: parsed.filePath, line: 0, col: 0 });
+    }
     // Carry the partial-index signal up so indexAll can tally it. The record +
     // frontmatter above are always written in full; only body objects are capped.
     if (parsed.annotationsTruncated)

package/dist/engine/indexing.js.map

@@ -1 +1 @@
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package/dist/engine/reads.d.ts.map

@@ -1 +1 @@
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package/dist/engine/reads.js

@@ -282,6 +282,9 @@ export function summary(ctx) {
     // same posture as the read-mode validation this replaced.
     const brokenRefs = ctx.backend.countBrokenRefs();
     const validationErrors = ctx.backend.countInvalidDocuments();
+    // 0.8.1 — partial/stale rows (annotation-capped bodies, over-byte-cap docs
+    // serving their last indexed content), persisted at index time.
+    const partialDocs = ctx.backend.countPartialDocuments();
     const emptyProject = ctx.registry.types.size === 0 && stats.totalDocuments === 0;
     return {
         types,
@@ -289,7 +292,7 @@ export function summary(ctx) {
         totalObjects: stats.totalObjects,
         totalRelationships: stats.totalRelationships,
         lastIndexedAt: stats.lastIndexedAt,
-        warnings: { brokenRefs, validationErrors },
+        warnings: { brokenRefs, validationErrors, partialDocs },
         emptyProject,
         bootstrapHint: emptyProject ? '_skills/architect-core.md' : null,
         readOnly: ctx.readOnly,
@@ -728,7 +731,7 @@ export async function verifyIntegrity(ctx, query = {}) {
         const dirPath = path.join(ctx.projectRoot, regType.path);
         if (!existsSync(dirPath))
             continue;
-        const files = await collectMarkdownFiles(dirPath);
+        const { files } = await collectMarkdownFiles(dirPath);
         for (const file of files) {
             // 0.7.12 — write-path canonicalizes file_path to forward slashes and
             // getDocumentByPath is now separator-tolerant, so the prior two-forms