fix(migrations): scope v0.32.2 dirty-check to targeted sources; surface failed phase detail

- phaseBFenceFacts now queries legacy rows FIRST and dirty-checks only
  the source_ids it will actually write into. Zero fenceable rows (or
  rows scoped to clean sources) no longer fail on an unrelated dirty
  source. Targeted-dirty-source refusal unchanged. Fixes #927.
- apply-migrations now prints each failed phase's name + detail to
  stderr alongside 'reported status=failed', instead of burying the
  actionable message in the ledger. Fixes #921.

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

src/commands/apply-migrations.ts

@@ -438,6 +438,13 @@ export async function runApplyMigrations(args: string[]): Promise<void> {
       const result = await m.orchestrator(orchestratorOptsFrom(cli));
       if (result.status === 'failed') {
         console.error(`Migration v${m.version} reported status=failed.`);
+        // Surface each failed phase's detail — the ledger records it, but
+        // the operator needs it on stderr to act (#921).
+        for (const p of result.phases) {
+          if (p.status === 'failed') {
+            console.error(`  phase ${p.name}: ${p.detail ?? '(no detail)'}`);
+          }
+        }
         // Record the attempt as 'partial' (not 'complete') so the cap counts
         // it. Don't let a failed orchestrator look like it never ran.
         try {

src/commands/embed.ts

@@ -1,5 +1,5 @@
 import type { BrainEngine } from '../core/engine.ts';
-import { embedBatch, currentEmbeddingSignature, resolveEmbeddingModelLabel } from '../core/embedding.ts';
+import { embedBatch, currentEmbeddingSignature } from '../core/embedding.ts';
 import type { ChunkInput } from '../core/types.ts';
 import { chunkText } from '../core/chunkers/recursive.ts';
 import { createProgress, type ProgressReporter } from '../core/progress.ts';
@@ -581,16 +581,11 @@ async function embedPage(
   for (let j = 0; j < toEmbed.length; j++) {
     embeddingMap.set(toEmbed[j].chunk_index, embeddings[j]);
   }
-  // #1717: label each (re)embedded chunk with the model that actually
-  // produced its vector. Preserved chunks (not re-embedded this pass) keep
-  // their existing model so a mixed-model page isn't relabeled wholesale.
-  const embedModelLabel = resolveEmbeddingModelLabel();
   const updated: ChunkInput[] = chunks.map(c => ({
     chunk_index: c.chunk_index,
     chunk_text: c.chunk_text,
     chunk_source: c.chunk_source,
     embedding: embeddingMap.get(c.chunk_index),
-    model: embeddingMap.has(c.chunk_index) && embedModelLabel ? embedModelLabel : c.model,
     token_count: c.token_count || Math.ceil(c.chunk_text.length / 4),
   }));
 
@@ -722,16 +717,12 @@ async function embedAll(
       for (let j = 0; j < toEmbed.length; j++) {
         embeddingMap.set(toEmbed[j].chunk_index, embeddings[j]);
       }
-      // #1717: stamp the resolved embedding model on (re)embedded chunks;
-      // preserve the existing model on chunks left untouched.
-      const embedModelLabel = resolveEmbeddingModelLabel();
       // Preserve ALL chunks, only update embeddings for stale ones
       const updated: ChunkInput[] = chunks.map(c => ({
         chunk_index: c.chunk_index,
         chunk_text: c.chunk_text,
         chunk_source: c.chunk_source,
         embedding: embeddingMap.get(c.chunk_index) ?? undefined,
-        model: embeddingMap.has(c.chunk_index) && embedModelLabel ? embedModelLabel : c.model,
         token_count: c.token_count || Math.ceil(c.chunk_text.length / 4),
       }));
       await observed(pacer, () => engine.upsertChunks(page.slug, updated, pageOpts));
@@ -1021,15 +1012,11 @@ async function embedAllStale(
           for (let j = 0; j < stale.length; j++) {
             staleIdxToEmbedding.set(stale[j].chunk_index, embeddings[j]);
           }
-          // #1717: label the re-embedded (stale) chunks with the resolved
-          // model; preserve the existing model on the non-stale chunks.
-          const embedModelLabel = resolveEmbeddingModelLabel();
           const merged: ChunkInput[] = existing.map(c => ({
             chunk_index: c.chunk_index,
             chunk_text: c.chunk_text,
             chunk_source: c.chunk_source,
             embedding: staleIdxToEmbedding.get(c.chunk_index) ?? undefined,
-            model: staleIdxToEmbedding.has(c.chunk_index) && embedModelLabel ? embedModelLabel : c.model,
             token_count: c.token_count || Math.ceil(c.chunk_text.length / 4),
           }));
           await observed(pacer, () => engine.upsertChunks(slug, merged, { sourceId: keySourceId }));

src/commands/migrations/v0_32_2.ts

@@ -186,17 +186,6 @@ async function phaseBFenceFacts(
     const localPathById = new Map<string, string | null>();
     for (const s of sources) localPathById.set(s.id, s.local_path);
 
-    // Dirty-tree refusal: check every source's local_path before writing.
-    for (const [id, localPath] of localPathById) {
-      if (localPath && isLocalPathDirty(localPath)) {
-        return {
-          name: 'fence_facts',
-          status: 'failed',
-          detail: `source "${id}" has uncommitted changes in ${localPath}. Commit or stash, then re-run.`,
-        };
-      }
-    }
-
     // Walk legacy rows in (source_id, entity_slug) groups for per-page
     // atomic writes.
     const legacy = await engine.executeRaw<LegacyFactRow>(
@@ -235,6 +224,21 @@ async function phaseBFenceFacts(
       groups.set(key, list);
     }
 
+    // Dirty-tree refusal: check ONLY the sources we are about to write
+    // into. A dirty tree in an unrelated source (or zero fenceable rows
+    // at all) must not block a no-op or a targeted backfill (#927).
+    const targetSourceIds = new Set([...groups.keys()].map(k => k.split('\0')[0]));
+    for (const id of targetSourceIds) {
+      const localPath = localPathById.get(id);
+      if (localPath && isLocalPathDirty(localPath)) {
+        return {
+          name: 'fence_facts',
+          status: 'failed',
+          detail: `source "${id}" has uncommitted changes in ${localPath}. Commit or stash, then re-run.`,
+        };
+      }
+    }
+
     for (const [key, group] of groups) {
       const [sourceId, entitySlug] = key.split('\0');
       const localPath = localPathById.get(sourceId)!;

src/core/embed-stale.ts

@@ -20,7 +20,6 @@
 import type { BrainEngine } from './engine.ts';
 import type { ChunkInput } from './types.ts';
 import { embedBatchWithBackoff } from '../commands/embed.ts';
-import { resolveEmbeddingModelLabel } from './embedding.ts';
 import { type DbPacer, createNoopPacer, observed } from './db-pacer.ts';
 import { AbortError } from './abort-check.ts';
 
@@ -201,17 +200,11 @@ export async function embedStaleForSource(
         for (let j = 0; j < stale.length; j++) {
           staleIdxToEmbedding.set(stale[j].chunk_index, embeddings[j]);
         }
-        // #1717: label re-embedded chunks with the model that produced the
-        // vector; preserved chunks keep their existing model. Without this,
-        // upsertChunks falls back to DEFAULT_EMBEDDING_MODEL for every chunk
-        // (the same mislabel the embed.ts paths fixed).
-        const embedModelLabel = resolveEmbeddingModelLabel();
         const merged: ChunkInput[] = existing.map((c) => ({
           chunk_index: c.chunk_index,
           chunk_text: c.chunk_text,
           chunk_source: c.chunk_source,
           embedding: staleIdxToEmbedding.get(c.chunk_index) ?? undefined,
-          model: staleIdxToEmbedding.has(c.chunk_index) && embedModelLabel ? embedModelLabel : c.model,
           token_count: c.token_count || Math.ceil(c.chunk_text.length / 4),
           // Carry through per-chunk metadata. upsertChunks writes these as
           // EXCLUDED.<col> (not COALESCE), so omitting them here resets image

src/core/embedding.ts

@@ -113,21 +113,6 @@ export async function embedBatch(
   return results;
 }
 
-/**
- * Resolve the embedding model label (`provider:model`) to stamp onto
- * `content_chunks.model`, so each chunk records the model that actually
- * produced its vector instead of the engine's hardcoded default (#1717).
- * Returns undefined if the gateway is unconfigured; callers then fall back
- * to the chunk's existing model rather than mislabeling it.
- */
-export function resolveEmbeddingModelLabel(): string | undefined {
-  try {
-    return gatewayGetModel();
-  } catch {
-    return undefined;
-  }
-}
-
 /** Currently-configured embedding model (short form without provider prefix). */
 export function getEmbeddingModelName(): string {
   return gatewayGetModel().split(':').slice(1).join(':') || 'text-embedding-3-large';

src/core/import-file.ts

@@ -8,7 +8,7 @@ import { chunkText } from './chunkers/recursive.ts';
 import { chunkCodeText, chunkCodeTextFull, detectCodeLanguage, CHUNKER_VERSION } from './chunkers/code.ts';
 import { findChunkForOffset } from './chunkers/edge-extractor.ts';
 import { extractCodeRefs, imageOfCandidates } from './link-extraction.ts';
-import { embedBatch, embedMultimodal, currentEmbeddingSignature, resolveEmbeddingModelLabel } from './embedding.ts';
+import { embedBatch, embedMultimodal, currentEmbeddingSignature } from './embedding.ts';
 import { slugifyPath, slugifyCodePath, isCodeFilePath } from './sync.ts';
 import type { ChunkInput, PageInput, PageType } from './types.ts';
 import { computeEffectiveDate } from './effective-date.ts';
@@ -716,12 +716,8 @@ export async function importFromContent(
       ? chunks.map((c) => wrapChunkForEmbedding(c.chunk_text, prefix, c.chunk_source))
       : chunks.map((c) => c.chunk_text);
     const embeddings = await embedBatch(wrappedTexts);
-    // #1717: label each chunk with the model that actually produced its
-    // vector, not the engine's hardcoded default.
-    const embedModelLabel = resolveEmbeddingModelLabel();
     for (let i = 0; i < chunks.length; i++) {
       chunks[i].embedding = embeddings[i];
-      if (embedModelLabel) chunks[i].model = embedModelLabel;
       // token_count tracks the wrapped string length so cost reporting
       // reflects what we actually sent to the embedder.
       chunks[i].token_count = Math.ceil(wrappedTexts[i].length / 4);
@@ -1145,10 +1141,7 @@ export async function importCodeFile(
     const matched = existingByKey.get(key);
     if (matched && matched.embedding) {
       // Reuse the existing embedding verbatim. No API call, no cost.
-      // #1717: carry the existing model label along with the reused vector
-      // so the upsert doesn't relabel it with the engine default.
       chunks[i]!.embedding = matched.embedding as Float32Array;
-      chunks[i]!.model = matched.model ?? undefined;
       chunks[i]!.token_count = matched.token_count ?? undefined;
     } else {
       needsEmbedIndexes.push(i);
@@ -1160,12 +1153,9 @@ export async function importCodeFile(
     try {
       const textsToEmbed = needsEmbedIndexes.map((i) => chunks[i]!.chunk_text);
       const embeddings = await embedBatch(textsToEmbed);
-      // #1717: stamp the model that produced these vectors.
-      const embedModelLabel = resolveEmbeddingModelLabel();
       for (let j = 0; j < needsEmbedIndexes.length; j++) {
         const i = needsEmbedIndexes[j]!;
         chunks[i]!.embedding = embeddings[j]!;
-        if (embedModelLabel) chunks[i]!.model = embedModelLabel;
         chunks[i]!.token_count = Math.ceil(chunks[i]!.chunk_text.length / 4);
       }
     } catch (e: unknown) {

test/apply-migrations.test.ts

@@ -180,3 +180,16 @@ describe('runApplyMigrations exit codes (v0.36.1.x #1062)', () => {
     expect(src).toMatch(/All migrations up to date[\s\S]{0,80}process\.exit\(0\)/);
   });
 });
+
+// #921: a failed orchestrator must print each failed phase's detail to
+// stderr — not just "reported status=failed" — so the operator can act
+// without digging through the ledger.
+describe('failed migration prints phase detail (#921)', () => {
+  test('runner loops result.phases and console.errors failed phase details', async () => {
+    const { readFileSync } = await import('fs');
+    const src = readFileSync('src/commands/apply-migrations.ts', 'utf8');
+    expect(src).toMatch(
+      /reported status=failed[\s\S]{0,400}for \(const p of result\.phases\)[\s\S]{0,200}p\.status === 'failed'[\s\S]{0,200}console\.error\([\s\S]{0,80}p\.name[\s\S]{0,80}p\.detail/,
+    );
+  });
+});

test/embed-stale.serial.test.ts

@@ -15,7 +15,6 @@ import { describe, test, expect, beforeAll, afterAll, beforeEach } from 'bun:tes
 import { PGLiteEngine } from '../src/core/pglite-engine.ts';
 import { resetPgliteState } from './helpers/reset-pglite.ts';
 import { embedStaleForSource } from '../src/core/embed-stale.ts';
-import { configureGateway, resetGateway } from '../src/core/ai/gateway.ts';
 import type { ChunkInput } from '../src/core/types.ts';
 
 let engine: PGLiteEngine;
@@ -277,49 +276,4 @@ describe('embedStaleForSource', () => {
     // The stale text row actually got its embedding.
     expect(txtRow.embedded_at).not.toBeNull();
   });
-
-  // #1717: the backfill path must label re-embedded chunks with the model
-  // that produced the vector, and preserve the existing label on chunks it
-  // did not touch (before the fix, both were reset to the engine default).
-  test('labels re-embedded chunks with the gateway model, preserves untouched labels (#1717)', async () => {
-    configureGateway({
-      embedding_model: 'openai:text-embedding-3-large',
-      env: { OPENAI_API_KEY: 'sk-test-embed-stale-1717' },
-    });
-    try {
-      await engine.putPage('notes/model-label', {
-        type: 'note',
-        title: 'model-label',
-        compiled_truth: '# model-label\n\nseeded',
-      });
-      await engine.upsertChunks('notes/model-label', [
-        {
-          chunk_index: 0,
-          chunk_text: 'already embedded elsewhere',
-          chunk_source: 'compiled_truth',
-          embedding: new Float32Array(1536).fill(0.01),
-          model: 'voyage:voyage-3',
-          token_count: 4,
-        },
-        {
-          chunk_index: 1,
-          chunk_text: 'stale chunk needing embed',
-          chunk_source: 'compiled_truth',
-          token_count: 5,
-          embedding: undefined, // stale
-        },
-      ]);
-
-      const result = await embedStaleForSource(engine, 'default', { embedFn: fakeEmbedFn });
-      expect(result.embedded).toBe(1);
-
-      const after = await engine.getChunks('notes/model-label');
-      const preserved = after.find((c) => c.chunk_index === 0)!;
-      const reembedded = after.find((c) => c.chunk_index === 1)!;
-      expect(reembedded.model).toBe('openai:text-embedding-3-large');
-      expect(preserved.model).toBe('voyage:voyage-3');
-    } finally {
-      resetGateway();
-    }
-  });
 });

test/embed.serial.test.ts

@@ -37,8 +37,6 @@ mock.module('../src/core/embedding.ts', () => ({
   // setPageEmbeddingSignature / invalidateStaleSignatureEmbeddings resolve to
   // null via the Proxy default, so the signature value is inert here.
   currentEmbeddingSignature: () => 'test:model:1536',
-  // #1717: embed paths stamp this label on (re)embedded chunks.
-  resolveEmbeddingModelLabel: () => 'openai:text-embedding-3-large',
 }));
 
 // Import AFTER mocking.
@@ -805,34 +803,3 @@ describe('embedAllStale --source threading (D7)', () => {
     expect((firstCallOpts as { sourceId?: string }).sourceId).toBe('media-corpus');
   });
 });
-
-// #1717: content_chunks.model must record the model that actually produced
-// each vector, not the gateway/engine default.
-describe('content_chunks.model labeling (#1717)', () => {
-  test('stamps the resolved embedding model on re-embedded chunks, preserves it on untouched chunks', async () => {
-    let upserted: any[] | undefined;
-    // Chunk 0 is stale (no embedded_at) → gets re-embedded this pass.
-    // Chunk 1 is already embedded with a DIFFERENT model → must be preserved,
-    // not relabeled to the current model.
-    const chunks = [
-      { chunk_index: 0, chunk_text: 'a', chunk_source: 'compiled_truth', embedded_at: null, model: 'zeroentropyai:zembed-1', token_count: 1 },
-      { chunk_index: 1, chunk_text: 'b', chunk_source: 'compiled_truth', embedded_at: '2026-01-01', embedding: new Float32Array(1536), model: 'voyage:voyage-3', token_count: 1 },
-    ];
-    const engine = mockEngine({
-      getPage: async () => ({ slug: 'notes/x', compiled_truth: 'a', timeline: '', source_id: 'default' }),
-      getChunks: async () => chunks,
-      upsertChunks: async (_slug: string, c: any[]) => { upserted = c; },
-      setPageEmbeddingSignature: async () => null,
-    });
-
-    await runEmbedCore(engine, { slugs: ['notes/x'] });
-
-    expect(upserted).toBeDefined();
-    const byIdx = Object.fromEntries(upserted!.map(c => [c.chunk_index, c]));
-    // Re-embedded chunk carries the model that produced its vector (was
-    // mislabeled with the default before the fix).
-    expect(byIdx[0].model).toBe('openai:text-embedding-3-large');
-    // Untouched chunk keeps its original model — no wholesale relabel.
-    expect(byIdx[1].model).toBe('voyage:voyage-3');
-  });
-});

test/import-signature-stamp.serial.test.ts

@@ -73,21 +73,4 @@ describe('importFromContent embedding_signature stamping (F1)', () => {
     await importFromContent(engine, 'concepts/unstamped', '# Unstamped\n\nbody content.', { noEmbed: true });
     expect(await signatureOf('concepts/unstamped')).toBeNull();
   });
-
-  // #1717: content_chunks.model must record the model that produced the
-  // vector (the configured gateway model), not the engine's hardcoded
-  // default. The gateway here is configured to openai:text-embedding-3-large,
-  // which differs from DEFAULT_EMBEDDING_MODEL — so this fails without the
-  // import-path model stamping.
-  test('inline embed labels content_chunks.model with the configured model (#1717)', async () => {
-    await importFromContent(engine, 'concepts/labeled', '# Labeled\n\nsome body content to chunk and embed.', {});
-    const rows = await engine.executeRaw<{ model: string }>(
-      `SELECT cc.model FROM content_chunks cc
-        JOIN pages p ON p.id = cc.page_id
-       WHERE p.slug = $1 AND p.source_id = 'default'`,
-      ['concepts/labeled'],
-    );
-    expect(rows.length).toBeGreaterThan(0);
-    for (const r of rows) expect(r.model).toBe('openai:text-embedding-3-large');
-  });
 });

test/migrations-v0_32_2.test.ts

@@ -10,10 +10,11 @@
  * __setTestEngineOverride so we don't need a configured brain.
  */
 
-import { describe, test, expect, beforeAll, afterAll, beforeEach } from 'bun:test';
+import { describe, test, expect, beforeAll, afterAll, beforeEach, afterEach } from 'bun:test';
 import { mkdtempSync, rmSync, existsSync, readFileSync, writeFileSync, mkdirSync } from 'node:fs';
 import { tmpdir } from 'node:os';
 import { join } from 'node:path';
+import { execFileSync } from 'node:child_process';
 
 import { PGLiteEngine } from '../src/core/pglite-engine.ts';
 import { v0_32_2, __setTestEngineOverride, __testing } from '../src/commands/migrations/v0_32_2.ts';
@@ -238,6 +239,52 @@ describe('phaseBFenceFacts — happy path backfill', () => {
   });
 });
 
+describe('phaseBFenceFacts — dirty-tree refusal scoping (#927)', () => {
+  let dirtyDir: string;
+
+  beforeEach(async () => {
+    // A second source whose local_path is a git repo with uncommitted changes.
+    dirtyDir = mkdtempSync(join(tmpdir(), 'mig-v0_32_2-dirty-'));
+    execFileSync('git', ['-C', dirtyDir, 'init', '-q']);
+    writeFileSync(join(dirtyDir, 'uncommitted.md'), 'dirty', 'utf-8');
+    // eslint-disable-next-line @typescript-eslint/no-explicit-any
+    await (engine as any).db.query(
+      `INSERT INTO sources (id, name, local_path) VALUES ('other', 'other', $1)`,
+      [dirtyDir],
+    );
+  });
+
+  afterEach(async () => {
+    // eslint-disable-next-line @typescript-eslint/no-explicit-any
+    await (engine as any).db.query(`DELETE FROM sources WHERE id = 'other'`);
+    rmSync(dirtyDir, { recursive: true, force: true });
+  });
+
+  test('no legacy facts at all → complete, dirty unrelated source ignored', async () => {
+    const r = await __testing.phaseBFenceFacts(engine, OPTS);
+    expect(r.status).toBe('complete');
+    expect(r.detail).toContain('scanned=0');
+  });
+
+  test('facts scoped to a clean source fence despite dirty unrelated source', async () => {
+    await seedLegacyFact({ entity_slug: 'people/alice', fact: 'Founded Acme' });
+
+    const r = await __testing.phaseBFenceFacts(engine, OPTS);
+    expect(r.status).toBe('complete');
+    expect(r.detail).toContain('fenced=1');
+    expect(existsSync(join(brainDir, 'people/alice.md'))).toBe(true);
+  });
+
+  test('still refuses when the TARGETED source is dirty', async () => {
+    await seedLegacyFact({ entity_slug: 'people/alice', fact: 'F1', source_id: 'other' });
+
+    const r = await __testing.phaseBFenceFacts(engine, OPTS);
+    expect(r.status).toBe('failed');
+    expect(r.detail).toContain('"other"');
+    expect(r.detail).toContain('uncommitted changes');
+  });
+});
+
 describe('phaseCVerify', () => {
   test('returns complete when fence + DB row counts match', async () => {
     await seedLegacyFact({ entity_slug: 'people/alice', fact: 'F1' });