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fix(analyze): contain staged embedding writes to clean generation#180

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fix/embedding-identity-write-162
Jul 22, 2026
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fix(analyze): contain staged embedding writes to clean generation#180
100yenadmin merged 10 commits into
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fix/embedding-identity-write-162

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Closes #162.

This removes the unstable staged embedding restore/resume lifecycle from the supported path while keeping isolated staging, integrity validation, and journaled promotion.

Behavior:

  • existing staged semantic refreshes require explicit --embeddings --drop-embeddings
  • interrupted staged embedding checkpoints cannot resume without explicit clean restart
  • clean restart forces a full write only inside the staged database
  • completed staged generations remain eligible for atomic promotion
  • non-staged preservation/resume behavior is unchanged

Local proof:

  • 67 focused staged/integrity/vector-repair tests passed
  • TypeScript noEmit passed
  • Prettier check passed
  • GitNexus detect_changes: one expected runFullAnalysis flow, medium risk

Release gate remains held until copied-artifact acceptance and exact-head CI pass.

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evaOS review status: completed

PR: #180 - fix(analyze): contain staged embedding writes to clean generation
Head: 57a0edd9b90e6277ac0c7051fe0184ef070f620b
Updated: 2026-07-22T19:10:14.719Z

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PR URL: #180

Review URL: #180 (review)

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Review details
⚙️ Run configuration

Configuration used: Organization UI

Review profile: ASSERTIVE

Plan: Pro Plus

Run ID: 500bb301-8ea3-4f69-8ec1-bc2fe10ed866

📥 Commits

Reviewing files that changed from the base of the PR and between fd6a4ff and 46fde6c.

📒 Files selected for processing (11)
  • gitnexus/src/cli/analyze.ts
  • gitnexus/src/core/run-analyze.ts
  • gitnexus/src/core/staged-promotion.ts
  • gitnexus/src/server/analyze-launch.ts
  • gitnexus/src/server/analyze-worker-ipc.ts
  • gitnexus/test/unit/analyze-gitnexusrc.test.ts
  • gitnexus/test/unit/analyze-launch-recovery.test.ts
  • gitnexus/test/unit/analyze-no-stats-bridge.test.ts
  • gitnexus/test/unit/analyze-worker-ipc.test.ts
  • gitnexus/test/unit/hook-global-lock.test.ts
  • gitnexus/test/unit/run-analyze-staged.test.ts
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Walkthrough

PR: #180 - fix(analyze): contain staged embedding writes to clean generation
Head: 57a0edd9b90e6277ac0c7051fe0184ef070f620b into main. Review event: COMMENT.
Provider: GLM/Z.ai through ZCode (zcode-glm, zcode, model GLM-5.2).

Estimated review effort: 1/5 (~10 min)

Changed Files

File Status Churn Purpose Risk

Review Signal

No validated inline findings.
Dropped findings before posting: 0. High-severity findings: 0.

Risk Taxonomy

No finding categories.

Validation and Proof

1 required validation/proof recommendation(s) selected from changed files.

  • required: TypeScript/web build or CI proof - Runtime TypeScript/web files or package/config files changed. Proof: npm run build; typecheck; focused Vitest; green GitHub check.
    Proof status: sufficient - PR metadata mentions acceptable proof for each required validation recommendation.
    Profile validation hints: Call out stale index, wrong repo identity, memory growth, and destructive analyze behavior.
    Profile proof expectations: Look for focused CLI, index, query, or migration proof.

Related Context

Related issues/PRs: #162.
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  • No secret-like content survived into posted inline comments.
  • REQUEST_CHANGES is only used when eligible P0/P1 findings survive validation.
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Comment thread gitnexus/src/core/run-analyze.ts Outdated
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evaOS review status: completed

PR: #180 - fix(analyze): contain staged embedding writes to clean generation
Head: cd4c4acdcd6aab7bc2a1e816c71d3d645d83fe68
Updated: 2026-07-22T19:19:39.632Z

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PR URL: #180

Review URL: #180 (review)

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Walkthrough

PR: #180 - fix(analyze): contain staged embedding writes to clean generation
Head: cd4c4acdcd6aab7bc2a1e816c71d3d645d83fe68 into main. Review event: COMMENT.
Provider: GLM/Z.ai through ZCode (zcode-glm, zcode, model GLM-5.2).

Estimated review effort: 1/5 (~10 min)

Changed Files

File Status Churn Purpose Risk

Review Signal

No validated inline findings.
Dropped findings before posting: 0. High-severity findings: 0.

Risk Taxonomy

No finding categories.

Validation and Proof

1 required validation/proof recommendation(s) selected from changed files.

  • required: TypeScript/web build or CI proof - Runtime TypeScript/web files or package/config files changed. Proof: npm run build; typecheck; focused Vitest; green GitHub check.
    Proof status: sufficient - PR metadata mentions acceptable proof for each required validation recommendation.
    Profile validation hints: Call out stale index, wrong repo identity, memory growth, and destructive analyze behavior.
    Profile proof expectations: Look for focused CLI, index, query, or migration proof.

Related Context

Related issues/PRs: #162.
Suggested labels: none.
Suggested reviewers: none from current metadata.

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  • No secret-like content survived into posted inline comments.
  • REQUEST_CHANGES is only used when eligible P0/P1 findings survive validation.
  • Required behavior proof is present or not applicable.
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evaOS review status: completed

PR: #180 - fix(analyze): contain staged embedding writes to clean generation
Head: c3a86c72f240cebebd7c2a8c76c359961ba35eba
Updated: 2026-07-22T19:53:17.718Z

evaOS review completed for this PR head.

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PR URL: #180

Review URL: #180 (review)

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Walkthrough

PR: #180 - fix(analyze): contain staged embedding writes to clean generation
Head: c3a86c72f240cebebd7c2a8c76c359961ba35eba into main. Review event: COMMENT.
Provider: GLM/Z.ai through ZCode (zcode-glm, zcode, model GLM-5.2).

Estimated review effort: 1/5 (~10 min)

Changed Files

File Status Churn Purpose Risk

Review Signal

No validated inline findings.
Dropped findings before posting: 0. High-severity findings: 0.

Risk Taxonomy

No finding categories.

Validation and Proof

1 required validation/proof recommendation(s) selected from changed files.

  • required: TypeScript/web build or CI proof - Runtime TypeScript/web files or package/config files changed. Proof: npm run build; typecheck; focused Vitest; green GitHub check.
    Proof status: sufficient - PR metadata mentions acceptable proof for each required validation recommendation.
    Profile validation hints: Call out stale index, wrong repo identity, memory growth, and destructive analyze behavior.
    Profile proof expectations: Look for focused CLI, index, query, or migration proof.

Related Context

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Suggested reviewers: none from current metadata.

Review Settings Preview

  • Profile: assertive
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Pre-merge checklist

  • Inline comments target current RIGHT-side diff lines.
  • No secret-like content survived into posted inline comments.
  • REQUEST_CHANGES is only used when eligible P0/P1 findings survive validation.
  • Required behavior proof is present or not applicable.
  • Labels and reviewers are suggestions only; the bot did not auto-apply them.

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Comment thread gitnexus/src/core/run-analyze.ts Outdated
Comment thread gitnexus/src/core/run-analyze.ts
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CI Report

All checks passed

Pipeline Status

Stage Status Details
✅ Typecheck success tsc --noEmit
✅ Tests success unit tests, 3 platforms
✅ E2E success gitnexus-web changes only

Test Results

Tests Passed Failed Skipped Duration
14951 14888 0 63 21s

✅ All 14888 tests passed

63 test(s) skipped — expand for details

Code Coverage

Tests

Metric Coverage Covered Base Delta Status
Statements 81% 56620/69895 N/A% 🟢 ████████████████░░░░
Branches 68.21% 34945/51225 N/A% 🟢 █████████████░░░░░░░
Functions 87.12% 6578/7550 N/A% 🟢 █████████████████░░░
Lines 84.5% 50608/59885 N/A% 🟢 ████████████████░░░░

📋 View full run · Generated by CI

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evaOS review status: stale head

PR: #180 - fix(analyze): contain staged embedding writes to clean generation
Head: 967785e9943cb145c1127671a2b90b22beb6957d
Updated: 2026-07-22T20:22:13.555Z

evaOS review stopped because this queued head is no longer the live PR head.

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PR URL: #180

Details: live=7008977587714bea49b343800790849d28a869f0

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evaOS review status: completed

PR: #180 - fix(analyze): contain staged embedding writes to clean generation
Head: 7008977587714bea49b343800790849d28a869f0
Updated: 2026-07-22T20:27:02.663Z

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PR URL: #180

Review URL: #180 (review)

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Walkthrough

PR: #180 - fix(analyze): contain staged embedding writes to clean generation
Head: 7008977587714bea49b343800790849d28a869f0 into main. Review event: COMMENT.
Provider: GLM/Z.ai through ZCode (zcode-glm, zcode, model GLM-5.2).

Estimated review effort: 1/5 (~10 min)

Changed Files

File Status Churn Purpose Risk

Review Signal

No validated inline findings.
Dropped findings before posting: 0. High-severity findings: 0.

Risk Taxonomy

No finding categories.

Validation and Proof

1 required validation/proof recommendation(s) selected from changed files.

  • required: TypeScript/web build or CI proof - Runtime TypeScript/web files or package/config files changed. Proof: npm run build; typecheck; focused Vitest; green GitHub check.
    Proof status: sufficient - PR metadata mentions acceptable proof for each required validation recommendation.
    Profile validation hints: Call out stale index, wrong repo identity, memory growth, and destructive analyze behavior.
    Profile proof expectations: Look for focused CLI, index, query, or migration proof.

Related Context

Related issues/PRs: #162.
Suggested labels: none.
Suggested reviewers: none from current metadata.

Review Settings Preview

  • Profile: assertive
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  • Roadmap-only settings: auto-apply labels; auto-request reviewers; required status checks

Pre-merge checklist

  • Inline comments target current RIGHT-side diff lines.
  • No secret-like content survived into posted inline comments.
  • REQUEST_CHANGES is only used when eligible P0/P1 findings survive validation.
  • Required behavior proof is present or not applicable.
  • Labels and reviewers are suggestions only; the bot did not auto-apply them.

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Comment thread gitnexus/src/core/run-analyze.ts Outdated
Comment thread gitnexus/src/core/run-analyze.ts
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Parking this PR at the final review boundary. Exact head 7008977587714bea49b343800790849d28a869f0 is fully green, and the intended dirty-stage containment has focused proof, but two new current supported-path P2 threads remain: promotion recovery can skip newer/dirty source work, and completed-stage promotion can bypass schema/PDG/CJK compatibility rebuilds. Per the sprint stop-thrash rule, I am not opening another implementation/review cycle, not merging, and not publishing .8 from this head. Installed .7 remains active; fleet writers and the detached drain remain stopped.

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evaOS review status: completed

PR: #180 - fix(analyze): contain staged embedding writes to clean generation
Head: f473aff8135f8099ae89bb1c263f9a70bd85888f
Updated: 2026-07-22T21:08:53.661Z

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PR URL: #180

Review URL: #180 (review)

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Walkthrough

PR: #180 - fix(analyze): contain staged embedding writes to clean generation
Head: f473aff8135f8099ae89bb1c263f9a70bd85888f into main. Review event: COMMENT.
Provider: GLM/Z.ai through ZCode (zcode-glm, zcode, model GLM-5.2).

Estimated review effort: 1/5 (~10 min)

Changed Files

File Status Churn Purpose Risk

Review Signal

No validated inline findings.
Dropped findings before posting: 0. High-severity findings: 0.

Risk Taxonomy

No finding categories.

Validation and Proof

1 required validation/proof recommendation(s) selected from changed files.

  • required: TypeScript/web build or CI proof - Runtime TypeScript/web files or package/config files changed. Proof: npm run build; typecheck; focused Vitest; green GitHub check.
    Proof status: sufficient - PR metadata mentions acceptable proof for each required validation recommendation.
    Profile validation hints: Call out stale index, wrong repo identity, memory growth, and destructive analyze behavior.
    Profile proof expectations: Look for focused CLI, index, query, or migration proof.

Related Context

Related issues/PRs: #162.
Suggested labels: none.
Suggested reviewers: none from current metadata.

Review Settings Preview

  • Profile: assertive
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Pre-merge checklist

  • Inline comments target current RIGHT-side diff lines.
  • No secret-like content survived into posted inline comments.
  • REQUEST_CHANGES is only used when eligible P0/P1 findings survive validation.
  • Required behavior proof is present or not applicable.
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Comment thread gitnexus/src/core/run-analyze.ts
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evaOS review status: completed

PR: #180 - fix(analyze): contain staged embedding writes to clean generation
Head: 944eb2801b7800afd210a575d00dcb84cc327f54
Updated: 2026-07-22T21:29:22.170Z

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PR URL: #180

Review URL: #180 (review)

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Walkthrough

PR: #180 - fix(analyze): contain staged embedding writes to clean generation
Head: 944eb2801b7800afd210a575d00dcb84cc327f54 into main. Review event: COMMENT.
Provider: GLM/Z.ai through ZCode (zcode-glm, zcode, model GLM-5.2).

Estimated review effort: 1/5 (~10 min)

Changed Files

File Status Churn Purpose Risk

Review Signal

No validated inline findings.
Dropped findings before posting: 0. High-severity findings: 0.

Risk Taxonomy

No finding categories.

Validation and Proof

1 required validation/proof recommendation(s) selected from changed files.

  • required: TypeScript/web build or CI proof - Runtime TypeScript/web files or package/config files changed. Proof: npm run build; typecheck; focused Vitest; green GitHub check.
    Proof status: sufficient - PR metadata mentions acceptable proof for each required validation recommendation.
    Profile validation hints: Call out stale index, wrong repo identity, memory growth, and destructive analyze behavior.
    Profile proof expectations: Look for focused CLI, index, query, or migration proof.

Related Context

Related issues/PRs: #162.
Suggested labels: none.
Suggested reviewers: none from current metadata.

Review Settings Preview

  • Profile: assertive
  • Enabled sections: Review summary (inline_review); Walkthrough (inline_review); Changed-files table (walkthrough); Effort estimate (walkthrough); Related issues/PRs (walkthrough); Suggested labels (suggestion_only); Review status comment (sticky_status)
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  • Label suggestions: gitnexus, code-intelligence, backend
  • Reviewer suggestions: none
  • Suggestion behavior: suggestions only; labels and reviewers are not auto-applied.
  • Roadmap-only settings: auto-apply labels; auto-request reviewers; required status checks

Pre-merge checklist

  • Inline comments target current RIGHT-side diff lines.
  • No secret-like content survived into posted inline comments.
  • REQUEST_CHANGES is only used when eligible P0/P1 findings survive validation.
  • Required behavior proof is present or not applicable.
  • Labels and reviewers are suggestions only; the bot did not auto-apply them.

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Comment thread gitnexus/src/core/run-analyze.ts
Comment thread gitnexus/src/server/analyze-launch.ts Outdated
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evaOS review status: completed

PR: #180 - fix(analyze): contain staged embedding writes to clean generation
Head: 46fde6ce0b04e0958b2bede581e9c46a7ae87a7b
Updated: 2026-07-22T22:00:26.038Z

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PR URL: #180

Review URL: #180 (review)

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Walkthrough

PR: #180 - fix(analyze): contain staged embedding writes to clean generation
Head: 46fde6ce0b04e0958b2bede581e9c46a7ae87a7b into main. Review event: COMMENT.
Provider: GLM/Z.ai through ZCode (zcode-glm, zcode, model GLM-5.2).

Estimated review effort: 1/5 (~10 min)

Changed Files

File Status Churn Purpose Risk

Review Signal

No validated inline findings.
Dropped findings before posting: 0. High-severity findings: 0.

Risk Taxonomy

No finding categories.

Validation and Proof

1 required validation/proof recommendation(s) selected from changed files.

  • required: TypeScript/web build or CI proof - Runtime TypeScript/web files or package/config files changed. Proof: npm run build; typecheck; focused Vitest; green GitHub check.
    Proof status: sufficient - PR metadata mentions acceptable proof for each required validation recommendation.
    Profile validation hints: Call out stale index, wrong repo identity, memory growth, and destructive analyze behavior.
    Profile proof expectations: Look for focused CLI, index, query, or migration proof.

Related Context

Related issues/PRs: #162.
Suggested labels: none.
Suggested reviewers: none from current metadata.

Review Settings Preview

  • Profile: assertive
  • Enabled sections: Review summary (inline_review); Walkthrough (inline_review); Changed-files table (walkthrough); Effort estimate (walkthrough); Related issues/PRs (walkthrough); Suggested labels (suggestion_only); Review status comment (sticky_status)
  • Path instructions: none
  • Label suggestions: gitnexus, code-intelligence, backend
  • Reviewer suggestions: none
  • Suggestion behavior: suggestions only; labels and reviewers are not auto-applied.
  • Roadmap-only settings: auto-apply labels; auto-request reviewers; required status checks

Pre-merge checklist

  • Inline comments target current RIGHT-side diff lines.
  • No secret-like content survived into posted inline comments.
  • REQUEST_CHANGES is only used when eligible P0/P1 findings survive validation.
  • Required behavior proof is present or not applicable.
  • Labels and reviewers are suggestions only; the bot did not auto-apply them.

@100yenadmin
100yenadmin merged commit 186ba5c into main Jul 22, 2026
48 checks passed
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Successfully merging this pull request may close these issues.

[P0] Delete persisted pending embeddings by exact identity before staged resume regeneration

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