gitnexus 1.6.4-rc.4 → 1.6.4-rc.41

package/README.md

@@ -156,6 +156,7 @@ gitnexus analyze --embeddings    # Enable embedding generation (slower, better s
 gitnexus analyze --skip-agents-md  # Preserve custom AGENTS.md/CLAUDE.md gitnexus section edits
 gitnexus analyze --verbose       # Log skipped files when parsers are unavailable
 gitnexus analyze --max-file-size 1024  # Skip files larger than N KB (default: 512, cap: 32768)
+gitnexus analyze --worker-timeout 60  # Increase worker idle timeout for slow parses
 gitnexus mcp                     # Start MCP server (stdio) — serves all indexed repos
 gitnexus serve                   # Start local HTTP server (multi-repo) for web UI
 gitnexus index                   # Register an existing .gitnexus/ folder into the global registry
@@ -295,6 +296,25 @@ If `npm install -g gitnexus` fails on native modules:
 npm install -g gitnexus
 ```
 
+### Analyze warns about unavailable FTS or VECTOR extensions
+
+GitNexus uses optional DuckDB extensions for BM25 and vector search. The `gitnexus serve` and MCP read paths only ever try to `LOAD` the extensions — they never block on a network install. The `analyze` command, by default, attempts one bounded out-of-process `INSTALL` if `LOAD` fails and proceeds even when that install times out, so the index is always written to disk; BM25/vector search degrade gracefully until the extensions become available.
+
+Configure the behavior with two environment variables:
+
+| Variable | Values | Default | Effect |
+|----------|--------|---------|--------|
+| `GITNEXUS_LBUG_EXTENSION_INSTALL` | `auto`, `load-only`, `never` | `auto` | `auto` runs one bounded INSTALL if LOAD fails. `load-only` only uses already-installed extensions (recommended for offline / firewalled environments). `never` skips optional extensions entirely. |
+| `GITNEXUS_LBUG_EXTENSION_INSTALL_TIMEOUT_MS` | positive integer | `15000` | Wall-clock budget for the out-of-process `INSTALL` child before it is killed. |
+
+```bash
+# Offline/airgapped: never reach the network for extensions
+GITNEXUS_LBUG_EXTENSION_INSTALL=load-only npx gitnexus analyze
+
+# Slow network: give extension downloads more time
+GITNEXUS_LBUG_EXTENSION_INSTALL_TIMEOUT_MS=30000 npx gitnexus analyze
+```
+
 ### Analysis runs out of memory
 
 For very large repositories:
@@ -323,6 +343,21 @@ npx gitnexus analyze
 
 Values above **32768 KB (32 MB)** are clamped to the tree-sitter parser ceiling; invalid values fall back to the 512 KB default with a one-time warning. When an override is active, `analyze` prints the effective threshold in its startup banner (e.g. `GITNEXUS_MAX_FILE_SIZE: effective threshold 2048KB (default 512KB)`).
 
+### Analyze reports a worker timeout
+
+Worker parse timeouts are recoverable. GitNexus retries stalled worker jobs with backoff, splits large jobs to isolate slow files, and falls back to the sequential parser when needed. If a large repository needs more time per worker job, use either:
+
+```bash
+# CLI flag, in seconds
+npx gitnexus analyze --worker-timeout 60
+
+# Environment variable, in milliseconds
+export GITNEXUS_WORKER_SUB_BATCH_TIMEOUT_MS=60000
+npx gitnexus analyze
+```
+
+For repositories with very large source files, `GITNEXUS_WORKER_SUB_BATCH_MAX_BYTES` controls the worker job byte budget. The default is **8388608 bytes (8 MB)**.
+
 ## Privacy
 
 - All processing happens locally on your machine

package/dist/_shared/index.d.ts

@@ -44,7 +44,7 @@ export { CLASS_KINDS, METHOD_KINDS, FIELD_KINDS } from './scope-resolution/regis
 export type { RegistryContext, RegistryProviders, OwnerScopedContributor, ArityVerdict, } from './scope-resolution/registries/context.js';
 export { makeScopeId, clearScopeIdInternPool } from './scope-resolution/scope-id.js';
 export type { ScopeIdInput } from './scope-resolution/scope-id.js';
-export { buildScopeTree, ScopeTreeInvariantError } from './scope-resolution/scope-tree.js';
+export { buildScopeTree, canParentScope, ScopeTreeInvariantError, } from './scope-resolution/scope-tree.js';
 export type { ScopeTree } from './scope-resolution/scope-tree.js';
 export { buildPositionIndex } from './scope-resolution/position-index.js';
 export type { PositionIndex } from './scope-resolution/position-index.js';

package/dist/_shared/index.d.ts.map

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package/dist/_shared/index.js

@@ -31,7 +31,7 @@ export { compareByConfidenceWithTiebreaks, CONFIDENCE_EPSILON, } from './scope-r
 export { CLASS_KINDS, METHOD_KINDS, FIELD_KINDS } from './scope-resolution/registries/context.js';
 // Scope tree spine + position lookup (RFC §2.2 + §3.1; Ring 2 SHARED #912)
 export { makeScopeId, clearScopeIdInternPool } from './scope-resolution/scope-id.js';
-export { buildScopeTree, ScopeTreeInvariantError } from './scope-resolution/scope-tree.js';
+export { buildScopeTree, canParentScope, ScopeTreeInvariantError, } from './scope-resolution/scope-tree.js';
 export { buildPositionIndex } from './scope-resolution/position-index.js';
 // Shadow-mode diff + aggregation (RFC §6.3; Ring 2 SHARED #918)
 export { diffResolutions } from './scope-resolution/shadow/diff.js';

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package/dist/_shared/scope-resolution/finalize-algorithm.js

@@ -541,11 +541,59 @@ function deriveSimpleName(def) {
     return dot === -1 ? q : q.slice(dot + 1);
 }
 function findExportByName(defs, name) {
+    // GENERIC RULE (applies to every language using this finalize
+    // algorithm): when MULTIPLE `SymbolDefinition`s share the same simple
+    // name in `localDefs`, prefer callable / type-like defs over plain
+    // value defs (`Variable`, `Property`, …). The CALLER side of an
+    // import almost always wants the callable, not a value shadow that
+    // happens to share the name — and without a deterministic
+    // preference, capture order silently decides which def the import
+    // binds to.
+    //
+    // The single-def case is unchanged: when only one def has the name,
+    // it's returned regardless of its type (the `fallback` path below).
+    //
+    // TypeScript is the first known language where this matters in
+    // practice: `const fn = () => {}` emits BOTH a `Function` def (from
+    // `@declaration.function` on the inner arrow) AND a `Variable` def
+    // (from the generic `@declaration.variable` pattern matching the
+    // wrapping `lexical_declaration`), and consumers of `import { fn }`
+    // need to bind to the callable. Other migrated languages don't
+    // currently produce dual emits of this shape, so the rule is a no-op
+    // for them today; future languages get the same correctness
+    // guarantee for free if they ever do.
+    //
+    // See `gitnexus/test/integration/resolvers/typescript-hof-callbacks.test.ts`
+    // for the cross-file regression this rule prevents.
+    let fallback;
     for (const d of defs) {
-        if (deriveSimpleName(d) === name)
+        if (deriveSimpleName(d) !== name)
+            continue;
+        if (isCallableOrTypeLike(d.type))
             return d;
+        if (fallback === undefined)
+            fallback = d;
     }
-    return undefined;
+    return fallback;
+}
+const CALLABLE_OR_TYPE_LIKE = new Set([
+    'Function',
+    'Method',
+    'Constructor',
+    'Class',
+    'Interface',
+    'Enum',
+    'Struct',
+    'Record',
+    'Trait',
+    'Namespace',
+    'Module',
+    'TypeAlias',
+    'Type',
+    'Typedef',
+]);
+function isCallableOrTypeLike(type) {
+    return CALLABLE_OR_TYPE_LIKE.has(type);
 }
 function countEdgesWithin(edgeIndex, files) {
     let n = 0;

package/dist/_shared/scope-resolution/finalize-algorithm.js.map

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package/dist/_shared/scope-resolution/scope-tree.d.ts

@@ -25,7 +25,7 @@
  * Immutable surface: `byId` is a `ReadonlyMap`; children arrays are
  * `Object.freeze`d; miss lookups return a shared frozen empty array.
  */
-import type { Scope, ScopeId, ScopeLookup } from './types.js';
+import type { Scope, ScopeId, ScopeLookup, Range } from './types.js';
 export interface ScopeTree extends ScopeLookup {
     readonly size: number;
     readonly byId: ReadonlyMap<ScopeId, Scope>;
@@ -58,4 +58,26 @@ export declare class ScopeTreeInvariantError extends Error {
  * consumers to handle, so fail-fast is the correct posture.
  */
 export declare function buildScopeTree(scopes: readonly Scope[]): ScopeTree;
+/**
+ * Whether `outer` (kind `outerKind`) is a valid parent for `inner` (kind
+ * `innerKind`).
+ *
+ * Strict containment is the general rule. The single carve-out is the
+ * `Module`/non-`Module` pair whose ranges are exactly equal — this happens
+ * naturally when tree-sitter reports identical byte spans for the
+ * `compilation_unit` (or equivalent file-root construct) and the file's
+ * single top-level scope. Common shape: a C# file consisting of nothing
+ * but `namespace X { ... }` with no leading or trailing trivia outside the
+ * namespace's `{}` body — `compilation_unit` and `namespace_declaration`
+ * both span exactly the same byte range. The `Module` is the universal
+ * outer of any file-level scope by language semantics, so coincident
+ * ranges should not break the parent chain.
+ *
+ * The carve-out is direction-asymmetric: only `Module`-as-outer parents a
+ * same-range non-`Module`, never the reverse. This preserves the
+ * acyclicity buildScopeTree relies on, and matches the corresponding
+ * helper in `scope-extractor.ts` so `pass1BuildScopes` and the validator
+ * agree on what a well-formed parent edge looks like.
+ */
+export declare function canParentScope(outer: Range, inner: Range, outerKind: Scope['kind'], innerKind: Scope['kind']): boolean;
 //# sourceMappingURL=scope-tree.d.ts.map

package/dist/_shared/scope-resolution/scope-tree.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"scope-tree.d.ts","sourceRoot":"","sources":["../../src/scope-resolution/scope-tree.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;;;;;;;;;;;;;;;GA0BG;AAEH,OAAO,KAAK,EAAE,KAAK,EAAE,OAAO,EAAE,WAAW,EAAE,KAAK,EAAE,MAAM,YAAY,CAAC;AAIrE,MAAM,WAAW,SAAU,SAAQ,WAAW;IAC5C,QAAQ,CAAC,IAAI,EAAE,MAAM,CAAC;IACtB,QAAQ,CAAC,IAAI,EAAE,WAAW,CAAC,OAAO,EAAE,KAAK,CAAC,CAAC;IAE3C,QAAQ,CAAC,EAAE,EAAE,OAAO,GAAG,KAAK,GAAG,SAAS,CAAC;IACzC,SAAS,CAAC,EAAE,EAAE,OAAO,GAAG,KAAK,GAAG,SAAS,CAAC;IAC1C,4EAA4E;IAC5E,WAAW,CAAC,EAAE,EAAE,OAAO,GAAG,SAAS,OAAO,EAAE,CAAC;IAC7C;;;;OAIG;IACH,YAAY,CAAC,EAAE,EAAE,OAAO,GAAG,SAAS,OAAO,EAAE,CAAC;IAC9C,GAAG,CAAC,EAAE,EAAE,OAAO,GAAG,OAAO,CAAC;CAC3B;AAID;;;;GAIG;AACH,qBAAa,uBAAwB,SAAQ,KAAK;IAE9C,QAAQ,CAAC,SAAS,EACd,4BAA4B,GAC5B,kBAAkB,GAClB,2BAA2B,GAC3B,wBAAwB,GACxB,4BAA4B,GAC5B,oBAAoB;gBANf,SAAS,EACd,4BAA4B,GAC5B,kBAAkB,GAClB,2BAA2B,GAC3B,wBAAwB,GACxB,4BAA4B,GAC5B,oBAAoB,EACxB,OAAO,EAAE,MAAM;CAKlB;AAID;;;;;;GAMG;AACH,wBAAgB,cAAc,CAAC,MAAM,EAAE,SAAS,KAAK,EAAE,GAAG,SAAS,CAiFlE;AA+ED;;;;;;;;;;;;;;;;;;;;GAoBG;AACH,wBAAgB,cAAc,CAC5B,KAAK,EAAE,KAAK,EACZ,KAAK,EAAE,KAAK,EACZ,SAAS,EAAE,KAAK,CAAC,MAAM,CAAC,EACxB,SAAS,EAAE,KAAK,CAAC,MAAM,CAAC,GACvB,OAAO,CAIT"}

package/dist/_shared/scope-resolution/scope-tree.js

@@ -72,8 +72,8 @@ export function buildScopeTree(scopes) {
         if (parent.filePath !== scope.filePath) {
             throw new ScopeTreeInvariantError('parent-must-share-filepath', `Scope '${scope.id}' (${scope.filePath}) has parent '${parent.id}' in a different file (${parent.filePath}). Parent/child scopes must share filePath.`);
         }
-        if (!rangeStrictlyContains(parent.range, scope.range)) {
-            throw new ScopeTreeInvariantError('parent-must-contain-child', `Parent scope '${parent.id}' at ${formatRange(parent.range)} does not strictly contain child '${scope.id}' at ${formatRange(scope.range)}.`);
+        if (!canParentScope(parent.range, scope.range, parent.kind, scope.kind)) {
+            throw new ScopeTreeInvariantError('parent-must-contain-child', `Parent scope '${parent.id}' at ${formatRange(parent.range)} does not contain child '${scope.id}' at ${formatRange(scope.range)} (allowed: strict containment, or equal-range Module-as-parent).`);
         }
         let bucket = childrenById.get(parent.id);
         if (bucket === undefined) {
@@ -164,6 +164,40 @@ function rangeStrictlyContains(outer, inner) {
         (outer.endLine === inner.endLine && outer.endCol >= inner.endCol);
     return outerStartsAtOrBefore && outerEndsAtOrAfter;
 }
+function rangesEqual(a, b) {
+    return (a.startLine === b.startLine &&
+        a.startCol === b.startCol &&
+        a.endLine === b.endLine &&
+        a.endCol === b.endCol);
+}
+/**
+ * Whether `outer` (kind `outerKind`) is a valid parent for `inner` (kind
+ * `innerKind`).
+ *
+ * Strict containment is the general rule. The single carve-out is the
+ * `Module`/non-`Module` pair whose ranges are exactly equal — this happens
+ * naturally when tree-sitter reports identical byte spans for the
+ * `compilation_unit` (or equivalent file-root construct) and the file's
+ * single top-level scope. Common shape: a C# file consisting of nothing
+ * but `namespace X { ... }` with no leading or trailing trivia outside the
+ * namespace's `{}` body — `compilation_unit` and `namespace_declaration`
+ * both span exactly the same byte range. The `Module` is the universal
+ * outer of any file-level scope by language semantics, so coincident
+ * ranges should not break the parent chain.
+ *
+ * The carve-out is direction-asymmetric: only `Module`-as-outer parents a
+ * same-range non-`Module`, never the reverse. This preserves the
+ * acyclicity buildScopeTree relies on, and matches the corresponding
+ * helper in `scope-extractor.ts` so `pass1BuildScopes` and the validator
+ * agree on what a well-formed parent edge looks like.
+ */
+export function canParentScope(outer, inner, outerKind, innerKind) {
+    if (rangeStrictlyContains(outer, inner))
+        return true;
+    if (outerKind === 'Module' && innerKind !== 'Module' && rangesEqual(outer, inner))
+        return true;
+    return false;
+}
 /**
  * Two ranges overlap when neither finishes before the other begins. Ranges
  * that merely touch at a single boundary point (`a.end === b.start`) do

package/dist/_shared/scope-resolution/scope-tree.js.map

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package/dist/cli/analyze.d.ts

@@ -45,5 +45,11 @@ export interface AnalyzeOptions {
      * `GITNEXUS_MAX_FILE_SIZE` for the rest of the pipeline.
      */
     maxFileSize?: string;
+    /** Override worker sub-batch idle timeout in seconds. */
+    workerTimeout?: string;
+    embeddingThreads?: string;
+    embeddingBatchSize?: string;
+    embeddingSubBatchSize?: string;
+    embeddingDevice?: string;
 }
 export declare const analyzeCommand: (inputPath?: string, options?: AnalyzeOptions) => Promise<void>;

package/dist/cli/analyze.js

@@ -12,11 +12,47 @@ import { execFileSync } from 'child_process';
 import v8 from 'v8';
 import cliProgress from 'cli-progress';
 import { closeLbug } from '../core/lbug/lbug-adapter.js';
-import { getStoragePaths, getGlobalRegistryPath, RegistryNameCollisionError, } from '../storage/repo-manager.js';
+import { getStoragePaths, getGlobalRegistryPath, RegistryNameCollisionError, AnalysisNotFinalizedError, assertAnalysisFinalized, } from '../storage/repo-manager.js';
 import { getGitRoot, hasGitDir } from '../storage/git.js';
 import { runFullAnalysis } from '../core/run-analyze.js';
 import { getMaxFileSizeBannerMessage } from '../core/ingestion/utils/max-file-size.js';
 import fs from 'fs/promises';
+// Capture stderr.write at module load BEFORE anything (LadybugDB native
+// init, progress bar, console redirection) can monkey-patch it. The
+// fatal handlers below MUST reach the user even when the analyze path
+// has redirected console.* through the progress bar's bar.log() — the
+// previous behaviour silently swallowed stack traces and made #1169
+// indistinguishable from a no-op success on Windows.
+const realStderrWrite = process.stderr.write.bind(process.stderr);
+const writeFatalToStderr = (label, err) => {
+    const isErr = err instanceof Error;
+    const message = isErr ? err.message : String(err);
+    realStderrWrite(`\n  ${label}: ${message}\n`);
+    if (isErr && err.stack)
+        realStderrWrite(`${err.stack}\n`);
+};
+let fatalHandlersInstalled = false;
+/**
+ * Install one-shot `unhandledRejection` / `uncaughtException` handlers
+ * that surface the failure to the real stderr (bypassing any console
+ * redirection installed by the progress bar) and force a non-zero exit
+ * code. Without these, an async error escaping {@link analyzeCommand}'s
+ * try/catch was reported as exit 0 with no diagnostic — the silent
+ * failure mode tracked in #1169.
+ */
+const installFatalHandlers = () => {
+    if (fatalHandlersInstalled)
+        return;
+    fatalHandlersInstalled = true;
+    process.on('unhandledRejection', (err) => {
+        writeFatalToStderr('Analysis failed (unhandled rejection)', err);
+        process.exit(1);
+    });
+    process.on('uncaughtException', (err) => {
+        writeFatalToStderr('Analysis failed (uncaught exception)', err);
+        process.exit(1);
+    });
+};
 const HEAP_MB = 8192;
 const HEAP_FLAG = `--max-old-space-size=${HEAP_MB}`;
 /** Increase default stack size (KB) to prevent stack overflow on deep class hierarchies. */
@@ -49,31 +85,68 @@ function ensureHeap() {
 export const analyzeCommand = async (inputPath, options) => {
     if (ensureHeap())
         return;
+    // Install fatal handlers immediately after re-exec resolution so any
+    // async error that escapes the try/catch below (#1169) surfaces with
+    // a stack trace and a non-zero exit code instead of a silent exit 0.
+    installFatalHandlers();
     if (options?.verbose) {
         process.env.GITNEXUS_VERBOSE = '1';
     }
     if (options?.maxFileSize) {
         process.env.GITNEXUS_MAX_FILE_SIZE = options.maxFileSize;
     }
+    if (options?.workerTimeout) {
+        const workerTimeoutSeconds = Number(options.workerTimeout);
+        if (!Number.isFinite(workerTimeoutSeconds) || workerTimeoutSeconds < 1) {
+            console.error('  --worker-timeout must be at least 1 second.\n');
+            process.exitCode = 1;
+            return;
+        }
+        process.env.GITNEXUS_WORKER_SUB_BATCH_TIMEOUT_MS = String(Math.round(workerTimeoutSeconds * 1000));
+    }
+    const setPositiveEnv = (optionName, envName, value) => {
+        if (value === undefined)
+            return true;
+        const parsed = Number(value);
+        if (!Number.isInteger(parsed) || parsed <= 0) {
+            console.error(`  ${optionName} must be a positive integer.\n`);
+            process.exitCode = 1;
+            return false;
+        }
+        process.env[envName] = String(parsed);
+        return true;
+    };
+    if (!setPositiveEnv('--embedding-threads', 'GITNEXUS_EMBEDDING_THREADS', options?.embeddingThreads) ||
+        !setPositiveEnv('--embedding-batch-size', 'GITNEXUS_EMBEDDING_BATCH_SIZE', options?.embeddingBatchSize) ||
+        !setPositiveEnv('--embedding-sub-batch-size', 'GITNEXUS_EMBEDDING_SUB_BATCH_SIZE', options?.embeddingSubBatchSize)) {
+        return;
+    }
+    if (options?.embeddingDevice) {
+        const allowed = new Set(['auto', 'cpu', 'dml', 'cuda', 'wasm']);
+        if (!allowed.has(options.embeddingDevice)) {
+            console.error('  --embedding-device must be one of: auto, cpu, dml, cuda, wasm.\n');
+            process.exitCode = 1;
+            return;
+        }
+        process.env.GITNEXUS_EMBEDDING_DEVICE = options.embeddingDevice;
+    }
     console.log('\n  GitNexus Analyzer\n');
     let repoPath;
     if (inputPath) {
         repoPath = path.resolve(inputPath);
     }
+    else if (options?.skipGit) {
+        // --skip-git: treat cwd as the index root, do not walk up to a parent git repo.
+        repoPath = path.resolve(process.cwd());
+    }
     else {
         const gitRoot = getGitRoot(process.cwd());
         if (!gitRoot) {
-            if (!options?.skipGit) {
-                console.log('  Not inside a git repository.\n  Tip: pass --skip-git to index any folder without a .git directory.\n');
-                process.exitCode = 1;
-                return;
-            }
-            // --skip-git: fall back to cwd as the root
-            repoPath = path.resolve(process.cwd());
-        }
-        else {
-            repoPath = gitRoot;
+            console.log('  Not inside a git repository.\n  Tip: pass --skip-git to index any folder without a .git directory.\n');
+            process.exitCode = 1;
+            return;
         }
+        repoPath = gitRoot;
     }
     const repoHasGit = hasGitDir(repoPath);
     if (!repoHasGit && !options?.skipGit) {
@@ -176,6 +249,11 @@ export const analyzeCommand = async (inputPath, options) => {
             onLog: barLog,
         });
         if (result.alreadyUpToDate) {
+            // Even the fast path must prove the repo is discoverable. A prior
+            // run can write meta.json and then fail before registerRepo(); in
+            // that half-finalized state, runFullAnalysis returns alreadyUpToDate
+            // on the next invocation unless we check the registry here too.
+            await assertAnalysisFinalized(repoPath);
             clearInterval(elapsedTimer);
             process.removeListener('SIGINT', sigintHandler);
             console.log = origLog;
@@ -187,6 +265,14 @@ export const analyzeCommand = async (inputPath, options) => {
             // runFullAnalysis never opens LadybugDB, so no native handles prevent exit.
             return;
         }
+        // Post-finalize invariant (#1169): runFullAnalysis nominally writes
+        // meta.json and registers the repo, but on Windows it has been
+        // observed to return successfully with neither artifact present
+        // (banner-only output, exit 0). Verify both before declaring
+        // success so the silent-finalize state surfaces with a non-zero
+        // exit code and an actionable error instead of being mistaken for
+        // a healthy index.
+        await assertAnalysisFinalized(repoPath);
         // Skill generation (CLI-only, uses pipeline result from analysis)
         if (options?.skills && result.pipelineResult) {
             updateBar(99, 'Generating skill files...');
@@ -264,7 +350,26 @@ export const analyzeCommand = async (inputPath, options) => {
             process.exitCode = 1;
             return;
         }
-        console.error(`\n  Analysis failed: ${msg}\n`);
+        // Finalize invariant failure (#1169) — keep the rich actionable
+        // message intact and write through realStderrWrite so it can't be
+        // erased by a leftover bar refresh on slow terminals.
+        if (err instanceof AnalysisNotFinalizedError) {
+            writeFatalToStderr('Analysis did not finalize', err);
+            realStderrWrite(`\n  Diagnostic checklist:\n` +
+                `    1. Re-run "gitnexus analyze" - transient native errors often clear on retry.\n` +
+                `    2. Inspect ${err.storagePath} - a leftover lbug.wal indicates an aborted write.\n` +
+                `    3. If the failure persists, run with NODE_OPTIONS="--max-old-space-size=8192 --trace-exit"\n` +
+                `       and attach the trace to the GitNexus issue tracker.\n\n`);
+            process.exitCode = 1;
+            return;
+        }
+        // Bypass the redirected console.error and write the full stack to
+        // the real stderr captured at module load. The redirected
+        // console.error wraps every line with `\\x1b[2K\\r` (ANSI clear-line)
+        // and forces a bar.update() afterwards, which on some Windows
+        // terminals visually erases the failure message — the canonical
+        // shape of the silent-exit symptom in #1169.
+        writeFatalToStderr('Analysis failed', err);
         // Provide helpful guidance for known failure modes
         if (msg.includes('Maximum call stack size exceeded') ||
             msg.includes('call stack') ||

package/dist/cli/doctor.d.ts

@@ -0,0 +1 @@
+export declare const doctorCommand: () => Promise<void>;

package/dist/cli/doctor.js

@@ -0,0 +1,31 @@
+import { getRuntimeCapabilities, getRuntimeFingerprint } from '../core/platform/capabilities.js';
+import { resolveEmbeddingConfig } from '../core/embeddings/config.js';
+import { isHttpMode } from '../core/embeddings/http-client.js';
+export const doctorCommand = async () => {
+    const fingerprint = getRuntimeFingerprint();
+    const capabilities = getRuntimeCapabilities();
+    const embeddingConfig = resolveEmbeddingConfig();
+    console.log('GitNexus Doctor\n');
+    console.log('Runtime');
+    console.log(`  OS:        ${fingerprint.platform}/${fingerprint.arch}`);
+    console.log(`  Node:      ${fingerprint.node}`);
+    console.log(`  GitNexus:  ${fingerprint.gitnexus}`);
+    console.log(`  LadybugDB: ${fingerprint.ladybugdb ?? 'unknown'}`);
+    console.log(`  ONNX:      ${fingerprint.onnxruntime ?? 'unknown'}`);
+    console.log('');
+    console.log('Capabilities');
+    console.log(`  Graph store:     ${capabilities.graph}`);
+    console.log(`  Full-text search:${capabilities.fts.padStart(10)}`);
+    console.log(`  VECTOR index:    ${capabilities.vector}`);
+    console.log(`  Semantic mode:   ${capabilities.semanticMode}`);
+    console.log(`  Exact scan limit:${String(capabilities.exactScanLimit).padStart(9)} chunks`);
+    if (capabilities.reason)
+        console.log(`  Note:            ${capabilities.reason}`);
+    console.log('');
+    console.log('Embeddings');
+    console.log(`  Backend:   ${isHttpMode() ? 'http' : 'local'}`);
+    console.log(`  Device:    ${embeddingConfig.device}`);
+    console.log(`  Threads:   ${embeddingConfig.threads}`);
+    console.log(`  Batch:     ${embeddingConfig.batchSize} nodes`);
+    console.log(`  Sub-batch: ${embeddingConfig.subBatchSize} chunks`);
+};