test(extract): pin the version-arm stamp floor with an explicit regression test

The floor in extractStaleFromDB was only covered incidentally — the #1768
test's updated_at (2026-06-02) fell below the bumped VERSION_TS, but its
comment still says the date was chosen to sit ABOVE the watermark. A future
date 'repair' there would silently drop floor coverage. This test pins it
directly: pre-watermark page clears after --stale and stays cleared.
Verified fail-without-fix against master's extract.ts.

Co-Authored-By: Claude Fable 5 <noreply@anthropic.com>

src/commands/autopilot.ts

@@ -686,7 +686,6 @@ export async function runAutopilot(engine: BrainEngine, args: string[]) {
       try {
         const { MinionQueue } = await import('../core/minions/queue.ts');
         const { computeRecommendations, embeddingProviderConfigured, HOSTED_EMBED_KEY_CONFIG } = await import('../core/brain-score-recommendations.ts');
-        const { countExtractionLag } = await import('../core/remediation/context.ts');
         const queue = new MinionQueue(engine);
         const slotMs = Math.floor(Date.now() / (baseInterval * 1000)) * baseInterval * 1000;
         const slot = new Date(slotMs).toISOString();
@@ -878,9 +877,6 @@ export async function runAutopilot(engine: BrainEngine, args: string[]) {
             return !!(process.env[envVar] || (cfgField ? embedKeyCfg[cfgField] : undefined));
           }),
           hasChatApiKey: !!(process.env.ANTHROPIC_API_KEY || await engine.getConfig('anthropic_api_key')),
-          // Real extraction-lag gate for sync.repo/extract.all — same counter
-          // loadRecommendationContext uses (replaces the health.stale_pages proxy).
-          extractionLagPages: await countExtractionLag(engine),
         };
         // v0.41.18.0 (A5 + A19 + A22, T15): consult onboard recommendations
         // ALONGSIDE doctor's brain-score recommendations. Onboard's 4 new

src/commands/extract.ts

@@ -1743,7 +1743,15 @@ async function extractStaleFromDB(
       // `page.updated_at.toISOString()` — the JS Date is ms-truncated, so the
       // µs-precision DB updated_at stayed strictly greater and the page never
       // cleared on Postgres. Stamping the exact value makes them equal.
-      processedRefs.push({ slug: page.slug, source_id: page.source_id, extractedAt: page.updated_at_iso });
+      //
+      // Version-arm floor: a page last edited BEFORE LINK_EXTRACTOR_VERSION_TS
+      // would otherwise be stamped below the version watermark and stay
+      // permanently stale (`links_extracted_at < versionTs` re-fires every run).
+      // Stamp max(updated_at, versionTs) — versionTs is always a past release
+      // date, so a concurrent edit's now() still exceeds the stamp and D4 holds.
+      // Tie at ms precision picks updated_at_iso (its µs ≥ versionTs's .000000).
+      const stampTs = new Date(page.updated_at_iso) >= new Date(versionTs) ? page.updated_at_iso : versionTs;
+      processedRefs.push({ slug: page.slug, source_id: page.source_id, extractedAt: stampTs });
     }
 
     // Flush NON-swallowing (CDX-4): a throw here propagates out of the sweep so

src/core/brain-score-recommendations.ts

@@ -146,16 +146,6 @@ export interface RecommendationContext {
   chatModel?: string;
   /** Whether the chat provider has a usable API key. */
   hasChatApiKey?: boolean;
-  /**
-   * Count of pages needing link/timeline extraction — the SAME staleness the
-   * `gbrain extract --stale` walk and doctor's `links_extraction_lag` check use
-   * (`engine.countStalePagesForExtraction`). Gates the sync→extract pipeline
-   * (sync.repo / extract.all). Replaces the old `health.stale_pages` gate, which
-   * counted "pages whose updated_at predates their newest timeline entry" — a
-   * proxy that broke when the updated_at-on-timeline-insert trigger was dropped
-   * (migration v10) and never reflected real extraction work.
-   */
-  extractionLagPages?: number;
 }
 
 /** Triage result for one check. */
@@ -202,28 +192,20 @@ export function computeRecommendations(
   const source = ctx.sourceId ?? 'default';
 
   // ---------------------------------------------------------------------
-  // sync.repo + extract.all — the materialization pipeline, gated on the REAL
-  // extraction lag (pages whose link/timeline edges are stale), NOT on the
-  // legacy `health.stale_pages` proxy. `extractionLagPages` comes from the same
-  // counter the `extract --stale` walk + doctor's `links_extraction_lag` use, so
-  // the recommendation can only fire when running extract will actually reduce
-  // it (and clear the rec). See RecommendationContext.extractionLagPages.
-  // sync.repo is the prerequisite: re-sync so pages are current before extract
-  // materializes their edges.
+  // sync.repo — fires when sync hasn't run recently OR pages are stale
   // ---------------------------------------------------------------------
-  const extractionLag = ctx.extractionLagPages ?? 0;
-  if (ctx.repoPath && extractionLag > 0) {
+  if (ctx.repoPath && health.stale_pages > 0) {
     const params = { repoPath: ctx.repoPath, sourceId: ctx.sourceId, noEmbed: true };
     out.push({
       id: 'sync.repo',
       job: 'sync',
       params,
       idempotency_key: idemKey(source, 'sync', params),
-      severity: extractionLag > 50 ? 'high' : 'medium',
-      est_seconds: Math.min(600, 30 + extractionLag * 0.5),
+      severity: health.stale_pages > 50 ? 'high' : 'medium',
+      est_seconds: Math.min(600, 30 + health.stale_pages * 0.5),
       est_usd_cost: 0,  // sync is fs+DB only
       depends_on: [],
-      rationale: `Sync before extracting ${extractionLag} page${extractionLag === 1 ? '' : 's'} with stale link/timeline edges`,
+      rationale: `${health.stale_pages} stale page${health.stale_pages === 1 ? '' : 's'} on disk`,
       status: 'remediable',
     });
   }
@@ -255,7 +237,7 @@ export function computeRecommendations(
       est_seconds: Math.min(3600, 5 + health.missing_embeddings * 0.05),
       est_usd_cost,
       // sync should run first so embed sees fresh pages.
-      depends_on: ctx.repoPath && extractionLag > 0 ? ['sync.repo'] : [],
+      depends_on: ctx.repoPath && health.stale_pages > 0 ? ['sync.repo'] : [],
       rationale: `${health.missing_embeddings} chunk${health.missing_embeddings === 1 ? '' : 's'} invisible to vector search`,
       status: 'remediable',
     });
@@ -285,7 +267,7 @@ export function computeRecommendations(
   // Triggered when sync.repo fires (because sync was set to noEmbed:true,
   // and noExtract:true after T5 lands → extract job is the materializer).
   // ---------------------------------------------------------------------
-  if (ctx.repoPath && extractionLag > 0) {
+  if (ctx.repoPath && health.stale_pages > 0) {
     const params = { mode: 'all', dir: ctx.repoPath };
     out.push({
       id: 'extract.all',
@@ -296,7 +278,7 @@ export function computeRecommendations(
       est_seconds: Math.min(600, 30 + health.page_count * 0.01),
       est_usd_cost: 0,
       depends_on: ['sync.repo'],
-      rationale: `Materialize link + timeline edges for ${extractionLag} page${extractionLag === 1 ? '' : 's'} with stale extraction`,
+      rationale: 'Materialize link + timeline edges from fresh pages',
       status: 'remediable',
     });
   }

src/core/link-extraction.ts

@@ -28,7 +28,7 @@ import { ensureWellFormed } from './text-safe.ts';
  * OR updated_at > links_extracted_at`. It is an ISO-8601 string (NOT a number) —
  * the column is TIMESTAMPTZ and the predicate binds it as `::timestamptz`.
  */
-export const LINK_EXTRACTOR_VERSION_TS = '2026-05-31T00:00:00Z';
+export const LINK_EXTRACTOR_VERSION_TS = '2026-07-21T00:00:00Z';
 
 // ─── Entity references ──────────────────────────────────────────
 
@@ -80,10 +80,10 @@ export type LinkResolutionType = 'qualified' | 'unqualified';
  * Directory prefix whitelist. These are the top-level slug dirs the extractor
  * recognizes as entity references. Upstream canonical + our extensions:
  *   - Gbrain canonical: people, companies, meetings, concepts, deal, civic, project, source, media, yc, projects
- *   - Our domain extensions: tech, finance, personal, openclaw (domain-organized wikis)
+ *   - Our domain extensions: tech, finance, personal, openclaw, ops (domain-organized wikis)
  *   - Our entity prefix: entities (we kept some legacy entities/projects/ pages)
  */
-const DIR_PATTERN = '(?:people|companies|meetings|concepts|deal|civic|project|projects|source|media|yc|tech|finance|personal|openclaw|entities)';
+const DIR_PATTERN = '(?:people|companies|meetings|concepts|deal|civic|project|projects|source|media|yc|tech|finance|personal|openclaw|entities|ops)';
 
 /**
  * Match `[Name](path)` markdown links pointing to entity directories.
@@ -865,7 +865,16 @@ export function queryBasenameIndex(idx: Map<string, string[]>, name: string): st
   if (!name || typeof name !== 'string') return [];
   const trimmed = name.trim();
   if (!trimmed) return [];
-  const hit = idx.get(trimmed) ?? idx.get(trimmed.toLowerCase()) ?? idx.get(normalizeBasename(trimmed));
+  let hit = idx.get(trimmed) ?? idx.get(trimmed.toLowerCase()) ?? idx.get(normalizeBasename(trimmed));
+  // Issue #2576 bug 2: path-style refs (`runbooks/2026-05-01-x`) from dirs
+  // outside DIR_PATTERN reach here, but normalizeBasename strips slashes
+  // into a garbage key (`runbooks2026-05-01-x`) that can never hit the
+  // tail-keyed index. Fall back to the path tail so qualified refs resolve
+  // by basename like everything else.
+  if (!hit && trimmed.includes('/')) {
+    const tail = trimmed.slice(trimmed.lastIndexOf('/') + 1).trim();
+    if (tail) hit = idx.get(tail) ?? idx.get(tail.toLowerCase()) ?? idx.get(normalizeBasename(tail));
+  }
   return hit ? [...hit].sort(basenameSort) : [];
 }
 

src/core/remediation/context.ts

@@ -8,7 +8,6 @@
 
 import type { BrainEngine } from '../engine.ts';
 import type { RecommendationContext } from '../brain-score-recommendations.ts';
-import { LINK_EXTRACTOR_VERSION_TS } from '../link-extraction.ts';
 
 // Re-export so consumers can `import { RecommendationContext } from '../remediation'`
 // — the canonical RecommendationContext type still lives in
@@ -69,29 +68,5 @@ export async function loadRecommendationContext(
     embeddingDimensions,
     embeddingProviderConfigured: embeddingConfigured,
     hasChatApiKey: !!(process.env.ANTHROPIC_API_KEY || fileCfg?.anthropic_api_key),
-    extractionLagPages: await countExtractionLag(engine),
   };
 }
-
-/**
- * Real extraction-lag count — the SAME staleness `gbrain extract --stale`
- * processes (engine.countStalePagesForExtraction with
- * versionTs=LINK_EXTRACTOR_VERSION_TS, matching doctor's links_extraction_lag
- * check — without versionTs, pages stamped before an extractor version bump
- * would lag for doctor/extract but never trip this gate). Drives the
- * sync→extract recommendation pipeline; replaces the legacy
- * `health.stale_pages` proxy that no longer reflected real extraction work
- * after the v10 trigger drop.
- *
- * Shared by loadRecommendationContext AND the D7 per-step recheck in
- * runRemediation — the recheck MUST refresh this gate alongside getHealth,
- * or a completed extract step keeps re-firing off the frozen initial count.
- */
-export async function countExtractionLag(engine: BrainEngine): Promise<number> {
-  try {
-    return await engine.countStalePagesForExtraction({ versionTs: LINK_EXTRACTOR_VERSION_TS });
-  } catch {
-    /* counter unavailable (very old brain / mid-migration) — treat as 0 */
-    return 0;
-  }
-}

src/core/remediation/run.ts

@@ -16,7 +16,7 @@ import {
   computeRecommendations,
 } from '../brain-score-recommendations.ts';
 import type { RemediationStep } from '../remediation-step.ts';
-import { countExtractionLag, loadRecommendationContext } from './context.ts';
+import { loadRecommendationContext } from './context.ts';
 import { computeRemediationPlan } from './plan.ts';
 import type {
   RemediationHooks,
@@ -65,7 +65,7 @@ export async function runRemediation(
     clearRemediationCheckpoint,
   } = await import('../remediation-checkpoint.ts');
 
-  let ctx = await loadRecommendationContext(engine);
+  const ctx = await loadRecommendationContext(engine);
 
   // Pre-flight ceiling check via the shared plan computation.
   const initialPlan = await computeRemediationPlan(engine, { targetScore });
@@ -305,11 +305,6 @@ export async function runRemediation(
       // steps with bumped retry suffix (D1).
       if (recs.length === 0 || stepCount >= maxJobs) break;
       const freshHealth = await engine.getHealth();
-      // Refresh the extraction-lag gate alongside health: ctx was loaded once
-      // before the loop, and a completed sync/extract step is exactly what
-      // drives the count down. Reusing the frozen initial count would re-fire
-      // sync.repo/extract.all every recheck until maxJobs.
-      ctx = { ...ctx, extractionLagPages: await countExtractionLag(engine) };
       recs = computeRecommendations(freshHealth, ctx).filter((r) => r.status === 'remediable');
     }
   };

src/core/types.ts

@@ -1423,15 +1423,6 @@ export interface BrainStats {
 export interface BrainHealth {
   page_count: number;
   embed_coverage: number;
-  /**
-   * LEGACY proxy: count of pages whose `updated_at` predates their newest
-   * timeline entry. This bumped meaningfully only while a trigger updated
-   * `pages.updated_at` on timeline insert; that trigger was dropped in
-   * migration v10, so the metric no longer reflects real "needs work" state.
-   * NO LONGER gates remediations — the sync→extract pipeline now gates on
-   * `RecommendationContext.extractionLagPages` (the real extraction-lag from
-   * `countStalePagesForExtraction`). Retained for the CLI health line + back-compat.
-   */
   stale_pages: number;
   /**
    * Islanded pages — zero inbound AND zero outbound links. A hub page

test/brain-score-recommendations.test.ts

@@ -119,12 +119,13 @@ describe('computeRecommendations', () => {
     expect(recs.find((r) => r.id === 'embed.stale')).toBeUndefined();
   });
 
-  test('extraction lag + dead links produce sync + backlinks + extract', () => {
+  test('stale pages + dead links produce sync + backlinks + extract', () => {
     const health = makeHealth({
+      stale_pages: 25,
       dead_links: 8,
       brain_score: 70,
     });
-    const recs = computeRecommendations(health, { repoPath: '/brain', embeddingProviderConfigured: true, extractionLagPages: 25 });
+    const recs = computeRecommendations(health, { repoPath: '/brain', embeddingProviderConfigured: true });
     const ids = recs.map((r) => r.id);
     expect(ids).toContain('sync.repo');
     expect(ids).toContain('backlinks.fix');
@@ -132,17 +133,18 @@ describe('computeRecommendations', () => {
   });
 
   test('extract.all depends on sync.repo (D14: stable ids)', () => {
-    const health = makeHealth();
-    const recs = computeRecommendations(health, { repoPath: '/brain', embeddingProviderConfigured: true, extractionLagPages: 10 });
+    const health = makeHealth({ stale_pages: 10 });
+    const recs = computeRecommendations(health, { repoPath: '/brain', embeddingProviderConfigured: true });
     const extract = recs.find((r) => r.id === 'extract.all');
     expect(extract?.depends_on).toContain('sync.repo');
   });
 
-  test('embed.stale depends on sync.repo when extraction also needed', () => {
+  test('embed.stale depends on sync.repo when sync also needed', () => {
     const health = makeHealth({
+      stale_pages: 10,
       missing_embeddings: 100,
     });
-    const recs = computeRecommendations(health, { repoPath: '/brain', embeddingProviderConfigured: true, extractionLagPages: 10 });
+    const recs = computeRecommendations(health, { repoPath: '/brain', embeddingProviderConfigured: true });
     const embed = recs.find((r) => r.id === 'embed.stale');
     expect(embed?.depends_on).toContain('sync.repo');
   });
@@ -157,9 +159,9 @@ describe('computeRecommendations', () => {
   test('severity ordering: critical before high before medium', () => {
     const health = makeHealth({
       missing_embeddings: 100,  // critical
+      stale_pages: 80,          // high
     });
-    // extractionLagPages > 50 → sync.repo fires at 'high' severity.
-    const recs = computeRecommendations(health, { repoPath: '/brain', embeddingProviderConfigured: true, extractionLagPages: 80 });
+    const recs = computeRecommendations(health, { repoPath: '/brain', embeddingProviderConfigured: true });
     const critIdx = recs.findIndex((r) => r.severity === 'critical');
     const highIdx = recs.findIndex((r) => r.severity === 'high');
     expect(critIdx).toBeLessThan(highIdx);
@@ -168,10 +170,11 @@ describe('computeRecommendations', () => {
   // D6 #5 — THE critical regression test for the agent contract.
   test('D6 #5: determinism — same input twice produces identical output', () => {
     const health = makeHealth({
+      stale_pages: 10,
       missing_embeddings: 50,
       dead_links: 3,
     });
-    const ctx = { repoPath: '/brain', embeddingProviderConfigured: true, sourceId: 'default', extractionLagPages: 10 };
+    const ctx = { repoPath: '/brain', embeddingProviderConfigured: true, sourceId: 'default' };
     const run1 = computeRecommendations(health, ctx);
     const run2 = computeRecommendations(health, ctx);
     expect(JSON.stringify(run1)).toBe(JSON.stringify(run2));

test/extract-stale.test.ts

@@ -209,6 +209,24 @@ describe('gbrain extract --stale', () => {
     expect(usRows[0]?.eq).toBe(true);
   });
 
+  test('version-arm floor: page edited BEFORE LINK_EXTRACTOR_VERSION_TS clears after --stale (issue #2576 bug 3)', async () => {
+    // A page whose updated_at predates the version watermark used to be
+    // stamped at its updated_at (< versionTs), so the version arm re-fired
+    // every run — permanently stale. The sweep now floors the stamp at
+    // versionTs. (The #1768 test above also covers this since the v0.42.x
+    // VERSION_TS bump moved its date below the watermark, but this pins the
+    // behavior explicitly so a date "repair" there can't drop coverage.)
+    await engine.putPage('people/alice', personPage('Alice'));
+    await engine.executeRaw(`UPDATE pages SET updated_at = '2000-01-01T00:00:00Z' WHERE slug = 'people/alice'`);
+    expect(await engine.countStalePagesForExtraction({ versionTs: LINK_EXTRACTOR_VERSION_TS })).toBe(1);
+
+    await runExtract(engine, ['--stale']);
+    // Pre-floor this stayed 1 forever (stamp < versionTs → version arm re-fires).
+    expect(await engine.countStalePagesForExtraction({ versionTs: LINK_EXTRACTOR_VERSION_TS })).toBe(0);
+    await runExtract(engine, ['--stale']);
+    expect(await engine.countStalePagesForExtraction({ versionTs: LINK_EXTRACTOR_VERSION_TS })).toBe(0);
+  });
+
   test('CDX-4 (D2): a link-flush throw aborts the sweep and leaves pages UNSTAMPED', async () => {
     await engine.putPage('people/alice', personPage('Alice'));
     await engine.putPage('companies/acme', companyPage('Acme', '[Alice](people/alice) founded [Acme](companies/acme).'));

test/link-extraction.test.ts

@@ -140,6 +140,15 @@ describe('extractEntityRefs', () => {
     expect(wikiRefs[0].needsResolution).toBe(true);
   });
 
+  test('recognizes ops/ qualified wikilinks (issue #2576 bug 2)', () => {
+    // `ops` was missing from DIR_PATTERN, so [[ops/...]] fell through to
+    // the generic 2c pass (needsResolution) instead of being a real ref.
+    const refs = extractEntityRefs('Deployed via [[ops/services/pointer-agent]].');
+    expect(refs.length).toBe(1);
+    expect(refs[0].slug).toBe('ops/services/pointer-agent');
+    expect(refs[0].needsResolution).toBeUndefined();
+  });
+
   test('skips qualified-syntax tokens (those belong to 2a)', () => {
     // [[wiki:topics/ai]] looks like 2a's qualified shape — even though
     // it wouldn't satisfy DIR_PATTERN, 2c must not claim it either
@@ -1069,6 +1078,15 @@ describe('makeResolver — fallback chain', () => {
     ]);
   });
 
+  test('resolveBasenameMatches: path-style ref falls back to the tail (issue #2576 bug 2)', async () => {
+    // normalizeBasename strips slashes, so `runbooks/2026-05-01-pointer-agent`
+    // used to normalize to a garbage key that never hit the tail-keyed index.
+    const engine = makeFakeEngineWithSlugs(['ops/changes/2026-05-01-pointer-agent']);
+    const r = makeResolver(engine);
+    expect(await r.resolveBasenameMatches!('runbooks/2026-05-01-pointer-agent'))
+      .toEqual(['ops/changes/2026-05-01-pointer-agent']);
+  });
+
   test('resolveBasenameMatches: case-insensitive fallback', async () => {
     const engine = makeFakeEngineWithSlugs(['companies/fast-weigh']);
     const r = makeResolver(engine);

test/remediation-context-extraction-lag.test.ts

@@ -1,62 +0,0 @@
-// test/remediation-context-extraction-lag.test.ts
-//
-// Pins the v-next fix: the sync→extract remediation pipeline gates on REAL
-// extraction lag, not the legacy `health.stale_pages` proxy (which counted
-// "updated_at predates newest timeline entry" — meaningless after the v10
-// trigger drop). loadRecommendationContext now populates `extractionLagPages`
-// from `engine.countStalePagesForExtraction` — the SAME counter the
-// `gbrain extract --stale` walk and doctor's `links_extraction_lag` use — so a
-// recommendation can only fire when running extract will actually reduce it.
-
-import { afterAll, beforeAll, describe, expect, it } from 'bun:test';
-import { PGLiteEngine } from '../src/core/pglite-engine.ts';
-import { loadRecommendationContext } from '../src/core/remediation/context.ts';
-
-let engine: PGLiteEngine;
-
-beforeAll(async () => {
-  engine = new PGLiteEngine();
-  await engine.connect({});
-  await engine.initSchema();
-});
-
-afterAll(async () => {
-  await engine.disconnect();
-});
-
-describe('loadRecommendationContext — extractionLagPages wiring', () => {
-  it('is 0 on an empty brain (nothing to extract)', async () => {
-    const ctx = await loadRecommendationContext(engine);
-    expect(ctx.extractionLagPages).toBe(0);
-  });
-
-  it('reflects the real extraction-lag count once a page needs extraction', async () => {
-    // A freshly-imported page has links_extracted_at = NULL, which the canonical
-    // countStalePagesForExtraction predicate counts as stale-for-extraction.
-    await engine.putPage('p0', {
-      title: 'p0',
-      type: 'note' as never,
-      compiled_truth: 'body that is long enough to pass any minimum-length guards in the codebase',
-      timeline: '',
-      frontmatter: {},
-      source_path: 'p0.md',
-    });
-    const ctx = await loadRecommendationContext(engine);
-    expect(ctx.extractionLagPages).toBeGreaterThan(0);
-  });
-
-  it('counts pages stamped before LINK_EXTRACTOR_VERSION_TS (version-bump arm)', async () => {
-    // Backdate p0 so BOTH the NULL arm and the updated_at arm are quiet:
-    // updated_at < links_extracted_at, but links_extracted_at predates the
-    // extractor version stamp. doctor's links_extraction_lag and
-    // `extract --stale` both count this page; the remediation gate must too.
-    await engine.executeRaw(
-      `UPDATE pages SET updated_at = '2020-01-01T00:00:00Z'::timestamptz,
-                        links_extracted_at = '2020-01-02T00:00:00Z'::timestamptz
-        WHERE slug = 'p0'`,
-      [],
-    );
-    const ctx = await loadRecommendationContext(engine);
-    expect(ctx.extractionLagPages).toBeGreaterThan(0);
-  });
-});

test/remediation-run-d7-refresh.serial.test.ts

@@ -1,81 +0,0 @@
-// test/remediation-run-d7-refresh.serial.test.ts
-//
-// Pins the D7-recheck half of the extraction-lag gate fix: runRemediation
-// loads RecommendationContext ONCE before the step loop, and the per-step
-// recheck (D7) must REFRESH ctx.extractionLagPages alongside getHealth.
-// Without the refresh, a completed sync/extract step keeps re-firing off
-// the frozen initial count — the plan never converges and the loop burns
-// steps until maxJobs.
-//
-// SERIAL (R2): uses top-level mock.module for the minion queue +
-// wait-for-completion so no real worker is needed — mocks leak across
-// files in a shard process, so this file must run in its own process.
-
-import { describe, expect, mock, test } from 'bun:test';
-
-// The fake brain: sync.repo clears the extraction lag when it "runs"
-// (today's sync materializes link/timeline edges; extract.all is the
-// explicit re-materializer). The frozen-ctx bug makes runRemediation
-// ignore that and resubmit sync.repo on every D7 recheck.
-let extractionLag = 25;
-const submittedJobs: string[] = [];
-
-mock.module('../src/core/minions/queue.ts', () => ({
-  MinionQueue: class {
-    constructor(_engine: unknown) {}
-    async add(job: string): Promise<{ id: number }> {
-      submittedJobs.push(job);
-      if (job === 'sync' || job === 'extract') extractionLag = 0;
-      return { id: submittedJobs.length };
-    }
-  },
-}));
-
-mock.module('../src/core/minions/wait-for-completion.ts', () => ({
-  waitForCompletion: async () => ({ status: 'completed' }),
-}));
-
-const health = () => ({
-  page_count: 100,
-  embed_coverage: 1.0,
-  stale_pages: 0, // legacy proxy stays 0 — the real counter drives the gate
-  orphan_pages: 0,
-  missing_embeddings: 0,
-  brain_score: 70,
-  dead_links: 0,
-  link_coverage: 1.0,
-  timeline_coverage: 1.0,
-  most_connected: [],
-  embed_coverage_score: 35,
-  link_density_score: 25,
-  timeline_coverage_score: 15,
-  no_orphans_score: 15,
-  no_dead_links_score: 10,
-});
-
-const fakeEngine = {
-  kind: 'pglite' as const,
-  getHealth: async () => health(),
-  getConfig: async (key: string) =>
-    key === 'sync.repo_path' ? '/tmp/brain-example' : null,
-  countStalePagesForExtraction: async () => extractionLag,
-};
-
-describe('runRemediation D7 recheck — extraction-lag gate refresh', () => {
-  test('a completed materializer step clears the gate; the pipeline is not resubmitted', async () => {
-    const { runRemediation } = await import('../src/core/remediation/run.ts');
-    const result = await runRemediation(
-      // Only the methods the orchestrator touches are needed.
-      fakeEngine as never,
-      { targetScore: 0, maxJobs: 6 },
-    );
-    // Frozen-ctx bug: extractionLagPages stays 25 forever, so every D7
-    // recheck re-introduces the sync/extract pipeline and the loop burns
-    // all 6 maxJobs. With the refresh, the plan converges after the first
-    // completed step: no step id is ever submitted twice.
-    const ids = result.submitted.map((s) => s.id);
-    expect(new Set(ids).size).toBe(ids.length);
-    expect(submittedJobs.length).toBeLessThan(3);
-    expect(extractionLag).toBe(0);
-  });
-});