@mutagent/helix 0.1.0-alpha.14

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Files changed (357) hide show
  1. package/.claude/skills/mutagent-helix/SKILL.md +113 -0
  2. package/.claude/skills/mutagent-helix/scripts/cli/codex-transcode.ts +143 -0
  3. package/.claude/skills/mutagent-helix/scripts/cli/doctor.ts +111 -0
  4. package/.claude/skills/mutagent-helix/scripts/cli/init.ts +382 -0
  5. package/.claude/skills/mutagent-helix/scripts/cli/run.sh +61 -0
  6. package/CLAUDE.md +193 -0
  7. package/LICENSE +201 -0
  8. package/NOTICE +22 -0
  9. package/README.md +209 -0
  10. package/assets/adl-loop.svg +162 -0
  11. package/assets/system-status.svg +422 -0
  12. package/bin/mutagent-cli.mjs +9950 -0
  13. package/bin/mutagent-helix.mjs +78 -0
  14. package/mutagent-agentspec/.claude/skills/mutagent-agentspec/CLAUDE.md +28 -0
  15. package/mutagent-agentspec/.claude/skills/mutagent-agentspec/SKILL.md +138 -0
  16. package/mutagent-agentspec/.claude/skills/mutagent-agentspec/assets/templates/agentspec.yaml.tpl +247 -0
  17. package/mutagent-agentspec/.claude/skills/mutagent-agentspec/references/frameworks/doc-pins.md +53 -0
  18. package/mutagent-agentspec/.claude/skills/mutagent-agentspec/references/principles.md +91 -0
  19. package/mutagent-agentspec/.claude/skills/mutagent-agentspec/references/requirements.yaml +295 -0
  20. package/mutagent-agentspec/.claude/skills/mutagent-agentspec/references/workflows/orchestrator-protocol.md +302 -0
  21. package/mutagent-agentspec/.claude/skills/mutagent-agentspec/scripts/cli/doctor.ts +116 -0
  22. package/mutagent-agentspec/.claude/skills/mutagent-agentspec/scripts/cli/init.ts +230 -0
  23. package/mutagent-agentspec/.claude/skills/mutagent-agentspec/scripts/cli/run.sh +60 -0
  24. package/mutagent-agentspec/.claude/skills/mutagent-agentspec/scripts/config/resolve-spec-dir.ts +199 -0
  25. package/mutagent-agentspec/.claude/skills/mutagent-agentspec/scripts/contract/agentspec.schema.ts +455 -0
  26. package/mutagent-agentspec/.claude/skills/mutagent-agentspec/scripts/setup/detect.ts +67 -0
  27. package/mutagent-agentspec/.claude/skills/mutagent-agentspec/scripts/validate/validate-spec.ts +93 -0
  28. package/mutagent-agentspec/LICENSE +201 -0
  29. package/mutagent-agentspec/NOTICE +19 -0
  30. package/mutagent-agentspec/README.md +44 -0
  31. package/mutagent-builder/.claude/skills/mutagent-builder/SKILL.md +100 -0
  32. package/mutagent-builder/.claude/skills/mutagent-builder/assets/agents/ai-architect.md +312 -0
  33. package/mutagent-builder/.claude/skills/mutagent-builder/assets/agents/ai-engineer.md +357 -0
  34. package/mutagent-builder/.claude/skills/mutagent-builder/assets/templates/build-report.md.tpl +39 -0
  35. package/mutagent-builder/.claude/skills/mutagent-builder/references/principles.md +31 -0
  36. package/mutagent-builder/.claude/skills/mutagent-builder/references/workflows/build-protocol.md +61 -0
  37. package/mutagent-builder/.claude/skills/mutagent-builder/references/workflows/improve-handoff.md +23 -0
  38. package/mutagent-builder/.claude/skills/mutagent-builder/scripts/cli/run.sh +60 -0
  39. package/mutagent-builder/.claude/skills/mutagent-builder/scripts/handoff/validate-build-input.ts +72 -0
  40. package/mutagent-builder/.claude/skills/mutagent-builder/scripts/sync-spec/check-sync-spec.ts +499 -0
  41. package/mutagent-builder/.claude/skills/mutagent-builder/scripts/verify/spec-impl-coverage.ts +182 -0
  42. package/mutagent-builder/CLAUDE.md +25 -0
  43. package/mutagent-builder/README.md +26 -0
  44. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/README.md +192 -0
  45. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/SKILL.md +352 -0
  46. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/agents/ai-architect.md +256 -0
  47. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/agents/ai-engineer.md +344 -0
  48. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/agents/diagnostics-analyzer.md +576 -0
  49. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/agents/discovery.md +425 -0
  50. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/templates/audit.json.tpl +24 -0
  51. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/templates/audit.md.tpl +49 -0
  52. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/templates/config.yaml.tpl +100 -0
  53. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/templates/pr-body.md.tpl +56 -0
  54. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/templates/report.html.tpl +327 -0
  55. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/templates/shared/README.md +27 -0
  56. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/templates/shared/iter-N-handover.md.tpl +125 -0
  57. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/templates/shared/self-diagnosis-contract.v0.1.0.yaml.tpl +234 -0
  58. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/templates/shared/spec.yaml.tpl +152 -0
  59. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/templates/shared/team.yaml.tpl +127 -0
  60. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/templates/shared/wave-N-dashboard.html.tpl +1712 -0
  61. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/wireframes/diagnostics/WF-2.1-nl-query.md +59 -0
  62. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/wireframes/diagnostics/WF-2.2-tier0-progress.md +58 -0
  63. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/wireframes/diagnostics/WF-2.3-analysis-progress.md +44 -0
  64. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/wireframes/diagnostics/WF-2.4-html-report.md +61 -0
  65. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/wireframes/diagnostics/WF-2.5-rca-detail.md +69 -0
  66. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/wireframes/diagnostics/WF-2.6-stale-warning.md +53 -0
  67. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/wireframes/onboarding/WF-1.1-welcome.md +60 -0
  68. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/wireframes/onboarding/WF-1.2-source-platform-picker.md +41 -0
  69. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/wireframes/onboarding/WF-1.3-source-auth.md +75 -0
  70. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/wireframes/onboarding/WF-1.4-target-picker.md +48 -0
  71. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/wireframes/onboarding/WF-1.5-ask-tool.md +43 -0
  72. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/wireframes/onboarding/WF-1.6-config-review.md +57 -0
  73. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/wireframes/onboarding/WF-1.7-filter-defaults.md +52 -0
  74. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/assets/wireframes/onboarding/WF-1.8-first-run.md +59 -0
  75. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/examples/sample-findings.json +92 -0
  76. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/examples/sample-meta.json +47 -0
  77. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/adapter-strategy.md +75 -0
  78. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/config-migration.md +84 -0
  79. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/config.md +159 -0
  80. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/filter-search-matrix.md +66 -0
  81. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/harness-knowledge.md +22 -0
  82. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/memory-format.md +78 -0
  83. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/onboarding-decisions.yaml +187 -0
  84. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/operation-inventory.md +59 -0
  85. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/overview.md +167 -0
  86. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/reference.md +119 -0
  87. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/script-index.md +101 -0
  88. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/source-adapter-contract.md +93 -0
  89. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/source-platforms/claude-code-transcripts.md +66 -0
  90. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/source-platforms/codex-transcripts.md +78 -0
  91. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/source-platforms/codex.md +145 -0
  92. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/source-platforms/install-paths.md +57 -0
  93. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/source-platforms/langfuse.md +178 -0
  94. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/source-platforms/local-jsonl.md +55 -0
  95. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/source-platforms/openobserve.md +102 -0
  96. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/source-platforms/otel.md +63 -0
  97. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/target-platforms/cloud-rest.md +84 -0
  98. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/target-platforms/local-claude.md +65 -0
  99. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/target-platforms/local-cloud-agent-sdk.md +92 -0
  100. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/target-platforms/local-codex.md +72 -0
  101. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/target-platforms/local-cursor.md +108 -0
  102. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/target-platforms/local-mastra.md +77 -0
  103. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/target-platforms/local-opencode.md +70 -0
  104. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/workflows/apply-pr-comment-format.md +82 -0
  105. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/workflows/diagnostics.md +35 -0
  106. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/workflows/handover-contract.md +247 -0
  107. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/workflows/onboarding.md +300 -0
  108. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/workflows/orchestrator-protocol.md +1861 -0
  109. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/workflows/rca.md +331 -0
  110. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/workflows/rendering-anatomy.md +314 -0
  111. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/workflows/schedule-prep.md +100 -0
  112. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/workflows/scope-model.md +128 -0
  113. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/references/workflows/verification-methodology.md +174 -0
  114. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/aggregate/sort-findings.ts +0 -0
  115. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/awareness/blind-spots.ts +167 -0
  116. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/awareness/llm-sample.ts +681 -0
  117. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/cli/doctor.ts +215 -0
  118. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/cli/init.ts +1013 -0
  119. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/cli/install-agents.ts +350 -0
  120. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/cli/run.sh +61 -0
  121. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/cli/shared-templates.ts +79 -0
  122. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/config/load.ts +392 -0
  123. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/config/resolve-credential.ts +120 -0
  124. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/config/schema.ts +641 -0
  125. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/config/validate.ts +134 -0
  126. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/context/build-diagnosis-context.ts +417 -0
  127. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/context/load-context.ts +105 -0
  128. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/contract/types.ts +166 -0
  129. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/enrich/build-render-input.ts +1964 -0
  130. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/enrich/corpus-severity.ts +172 -0
  131. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/enrich/dismissal-match.ts +270 -0
  132. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/enrich/rank-remedies.ts +75 -0
  133. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/hooks/install-hooks.sh +46 -0
  134. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/hooks/pre-push.sh +78 -0
  135. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/invocation/parse-brief.ts +188 -0
  136. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/library/match.ts +114 -0
  137. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/library/paths.ts +95 -0
  138. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/library/store.ts +535 -0
  139. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/library/types.ts +181 -0
  140. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/lint/template-inline-js.ts +267 -0
  141. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/memory/append.ts +188 -0
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  143. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/normalize/platforms/entity-context.ts +686 -0
  144. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/normalize/read-unitf.ts +267 -0
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  164. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/source/adapters/claude-code.ts +17 -0
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  166. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/source/adapters/langfuse.ts +17 -0
  167. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/source/adapters/local-jsonl.ts +12 -0
  168. package/mutagent-diagnostics/.claude/skills/mutagent-diagnostics/scripts/source/adapters/otel.ts +12 -0
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@@ -0,0 +1,59 @@
1
+ # WF-2.1 — Natural Language Query Entry
2
+
3
+ > Entry point for a diagnostics run.
4
+ > User states what they want in plain language; skill translates to TraceFilter.
5
+
6
+ ## Trigger
7
+
8
+ User says: "run diagnostics", "diagnose my agents", "why is my agent failing?",
9
+ "check last week's agent sessions", etc.
10
+
11
+ ## Display
12
+
13
+ ```
14
+ ┌─────────────────────────────────────────────────────────────┐
15
+ │ mutagent-diagnostics — Running │
16
+ │ │
17
+ │ What would you like to diagnose? │
18
+ │ (or press Enter to use defaults from config.yaml) │
19
+ │ │
20
+ │ Examples: │
21
+ │ • "Why did my search agent fail last week?" │
22
+ │ • "Show me sessions with negative feedback" │
23
+ │ • "Analyze errors from yesterday" │
24
+ │ • "Check the checkout-agent sessions" │
25
+ │ │
26
+ │ > _ │
27
+ └─────────────────────────────────────────────────────────────┘
28
+ ```
29
+
30
+ ## NL → TraceFilter Translation
31
+
32
+ The orchestrator translates the query:
33
+
34
+ | NL Fragment | TraceFilter Field |
35
+ |-------------|------------------|
36
+ | "last week" | `time_window.from = "7daysAgo"` |
37
+ | "yesterday" | `time_window.from = "1daysAgo"` |
38
+ | "errors" / "failed" | `has_error = true` |
39
+ | "negative feedback" | `has_feedback = true, score_below = <auto-discovered>` |
40
+ | "search agent" | `agent_id = "search-agent"` |
41
+ | (empty / Enter) | use `config.yaml` defaults |
42
+
43
+ ## After Translation
44
+
45
+ Show confirmation before running:
46
+
47
+ ```
48
+ Interpreted as:
49
+ • Time window: last 7 days
50
+ • Filter: errors only
51
+ • Agent: all agents
52
+ • Limit: 100 traces
53
+
54
+ [1] Run with these filters
55
+ [2] Adjust filters
56
+ [3] Cancel
57
+ ```
58
+
59
+ → On confirm: proceed to WF-2.2 (tier-0 scan progress)
@@ -0,0 +1,58 @@
1
+ # WF-2.2 — Tier-0 Scan Progress
2
+
3
+ > Displayed while tier-0-scan.ts runs (CODE-FIRST pre-LLM analysis).
4
+ > This runs before any LLM call — fast, deterministic.
5
+
6
+ ## Display (In Progress)
7
+
8
+ ```
9
+ ┌─────────────────────────────────────────────────────────────┐
10
+ │ Running diagnostics... │
11
+ │ │
12
+ │ [1/4] Fetching traces from langfuse... ████░░ 62% │
13
+ │ [2/4] Tier-0 scan (pre-LLM)... ░░░░░░ 0% │
14
+ │ [3/4] Deep analysis (LLM)... pending │
15
+ │ [4/4] Rendering report... pending │
16
+ │ │
17
+ │ Fetched 73 trace metadata records │
18
+ └─────────────────────────────────────────────────────────────┘
19
+ ```
20
+
21
+ ## Display (After Tier-0 Scan)
22
+
23
+ ```
24
+ ┌─────────────────────────────────────────────────────────────┐
25
+ │ Running diagnostics... │
26
+ │ │
27
+ │ [1/4] Fetching traces... ████████ done │
28
+ │ [2/4] Tier-0 scan (pre-LLM)... ████████ done │
29
+ │ [3/4] Deep analysis (LLM)... ████░░░░ 55%│
30
+ │ [4/4] Rendering report... pending │
31
+ │ │
32
+ │ Tier-0 findings: │
33
+ │ • Error spike: 12 errors in last 2h (threshold: 3) │
34
+ │ • Latency spike: p95 = 45s (threshold: 15s) │
35
+ │ • Analyzing 4 trace clusters (cap: 5) │
36
+ └─────────────────────────────────────────────────────────────┘
37
+ ```
38
+
39
+ ## Tier-0 Pattern Summary (shown after step 2)
40
+
41
+ | Pattern | Found | Value |
42
+ |---------|-------|-------|
43
+ | P-001 Error spike | Yes | 12 errors / 2h (threshold: 3) |
44
+ | P-002 Latency spike | Yes | p95=45s (threshold: 15s) |
45
+ | P-003 Feedback cluster | No | — |
46
+
47
+ ## Slice Plan Display
48
+
49
+ ```
50
+ Slice plan (cap=5):
51
+ Cluster 1: 8 error traces (2026-05-27 10:00–12:00)
52
+ Cluster 2: 5 high-latency traces
53
+ Cluster 3: 3 negative-feedback traces
54
+ Cluster 4: 2 remaining samples
55
+ → 4 clusters queued (under cap of 5)
56
+ ```
57
+
58
+ → Proceeds automatically to WF-2.3 (LLM analysis running)
@@ -0,0 +1,44 @@
1
+ # WF-2.3 — LLM Analysis Progress
2
+
3
+ > Displayed while diagnostics-analyzer sub-agents run in parallel (cap: 5).
4
+ > Each cluster is analyzed by one sub-agent.
5
+
6
+ ## Display (Parallel Execution)
7
+
8
+ ```
9
+ ┌─────────────────────────────────────────────────────────────┐
10
+ │ Deep analysis running (4 clusters, cap=5) │
11
+ │ │
12
+ │ Cluster 1 [errors, 8 traces] ████████ complete │
13
+ │ Cluster 2 [latency, 5 traces] ████░░░░ tier-2... │
14
+ │ Cluster 3 [feedback, 3 traces] ██░░░░░░ tier-1... │
15
+ │ Cluster 4 [sample, 2 traces] ░░░░░░░░ queued │
16
+ │ │
17
+ │ Findings so far: 3 critical, 1 warning │
18
+ │ Budget: 142s elapsed / 240s cap │
19
+ └─────────────────────────────────────────────────────────────┘
20
+ ```
21
+
22
+ ## Analysis Tiers (shown in progress labels)
23
+
24
+ | Label | Tier |
25
+ |-------|------|
26
+ | "tier-0..." | Pre-LLM pattern scan |
27
+ | "tier-1..." | Known pattern matching |
28
+ | "tier-2..." | Tree-based structural analysis |
29
+ | "tier-3..." | Deep structural (LLM) |
30
+ | "tier-4..." | LLM deviation detection |
31
+ | "complete" | All tiers done for this cluster |
32
+
33
+ ## Budget Exhaustion Warning
34
+
35
+ If budget cap (240s) is reached before all clusters complete:
36
+ ```
37
+ ⚠ Analysis budget reached (240s). 1 cluster not fully analyzed.
38
+ Partial findings included in report.
39
+
40
+ [1] View partial report
41
+ [2] Resume analysis (run again with narrower scope)
42
+ ```
43
+
44
+ → On all clusters complete: proceed to WF-2.4 (report HTML)
@@ -0,0 +1,61 @@
1
+ # WF-2.4 — HTML Report + Findings
2
+
3
+ > Primary output of a diagnostics run.
4
+ > Rendered via `scripts/report/render.ts` using `assets/templates/report.html.tpl`.
5
+
6
+ ## Layout
7
+
8
+ ```
9
+ ┌─────────────────────────────────────────────────────────────────┐
10
+ │ mutagent-diagnostics — Report │
11
+ │ Generated: 2026-05-27 10:42 | Source: langfuse | 73 traces │
12
+ ├─────────────────────────────────────────────────────────────────┤
13
+ │ [3 CRITICAL] [1 WARNING] [0 OK] [73 traces] │
14
+ ├─────────────────────────────────────────────────────────────────┤
15
+ │ Discovered Checks │
16
+ │ ┌──────────────┬──────────┬──────────┬─────────┐ │
17
+ │ │ Check │ Pattern │ Severity │ Found │ │
18
+ │ ├──────────────┼──────────┼──────────┼─────────┤ │
19
+ │ │ Error spike │ P-001 │ critical │ ✓ yes │ │
20
+ │ │ Latency p95 │ P-002 │ critical │ ✓ yes │ │
21
+ │ │ Low feedback │ P-003 │ warning │ ✓ yes │ │
22
+ │ └──────────────┴──────────┴──────────┴─────────┘ │
23
+ ├─────────────────────────────────────────────────────────────────┤
24
+ │ Findings │
25
+ │ ▼ [CRITICAL] Tool call timeout causing search failures │
26
+ │ WHAT: tool-timeout WHY: env-config WHERE: tool-invocation │
27
+ │ Evidence: ▸ 8 traces, latency p95 = 45s │
28
+ │ Root cause: SEARCH_TIMEOUT env var missing → default 5s │
29
+ │ ───────────────────────────────────────────────────────── │
30
+ │ REMEDY: Set SEARCH_TIMEOUT=30000 in .mutagentrc │
31
+ │ Target: local-claude (config) │
32
+ │ [ Copy markdown ] [ Accept fix ] │
33
+ │ │
34
+ │ ▶ [CRITICAL] Prompt hallucination on empty product list... │
35
+ │ ▶ [WARNING] Feedback cluster: 3 sessions scored <2/5... │
36
+ └─────────────────────────────────────────────────────────────────┘
37
+ │ [ Copy as Markdown ] │
38
+ └─────────────────────────────────────────────────────────────────┘
39
+ ```
40
+
41
+ ## Finding Card Layers (4 layers per PR-014)
42
+
43
+ 1. **Header**: severity badge + title + WHAT/WHY/WHERE taxonomy chips (collapsed by default)
44
+ 2. **Evidence**: trace IDs, message excerpts, score values, timestamps
45
+ 3. **RCA chain**: recursive why-chain until origin (no fixed depth)
46
+ 4. **Remedy**: target platform, change type, copy button, Accept/Dismiss actions
47
+
48
+ ## HITL Interaction
49
+
50
+ - **Copy markdown**: copies finding + remedy as markdown to clipboard
51
+ - **Accept fix**: triggers apply-worker for this specific finding (→ WF-3.1)
52
+ - **Dismiss**: marks finding as dismissed (recorded in audit)
53
+
54
+ ## Report File
55
+
56
+ Report is written to: `.mutagent/diagnostics/reports/report-<timestamp>.html`
57
+ Path is printed to console:
58
+ ```
59
+ Report written to: .mutagent/diagnostics/reports/report-2026-05-27T10-42.html
60
+ Opening in browser...
61
+ ```
@@ -0,0 +1,69 @@
1
+ # WF-2.5 — RCA Detail Expansion
2
+
3
+ > Expanded view of root cause analysis for a single finding.
4
+ > Shown when user clicks "expand" on a finding card in WF-2.4.
5
+
6
+ ## Display (Expanded Finding Card)
7
+
8
+ ```
9
+ ┌─────────────────────────────────────────────────────────────────┐
10
+ │ ▼ [CRITICAL] Tool call timeout causing search failures │
11
+ │ │
12
+ │ WHAT: tool-timeout WHY: env-config WHERE: tool-invocation │
13
+ │ │
14
+ │ Evidence (8 traces) │
15
+ │ ────────────────────────────────────────────────────────── │
16
+ │ tr_abc123 2026-05-27 10:05 duration: 47.2s error: timeout │
17
+ │ tr_abc124 2026-05-27 10:08 duration: 46.9s error: timeout │
18
+ │ tr_abc125 2026-05-27 10:11 duration: 45.1s error: timeout │
19
+ │ (+ 5 more) │
20
+ │ │
21
+ │ Root Cause Chain │
22
+ │ ────────────────────────────────────────────────────────── │
23
+ │ Why 1: Tool call `search` exceeded timeout limit │
24
+ │ Evidence: "Error: ETIMEDOUT after 5000ms" │
25
+ │ │
26
+ │ Why 2: Default timeout is 5s; search API requires 15–30s │
27
+ │ Evidence: search API docs, observed latency p50=18s │
28
+ │ │
29
+ │ Why 3: SEARCH_TIMEOUT env var not set in .mutagentrc │
30
+ │ Evidence: env probe shows SEARCH_TIMEOUT undefined │
31
+ │ │
32
+ │ Origin: Missing env configuration (env-config class) │
33
+ │ │
34
+ │ Remedy │
35
+ │ ────────────────────────────────────────────────────────── │
36
+ │ Type: config-patch │
37
+ │ Target: local-claude (local-agent class) │
38
+ │ Action: Add SEARCH_TIMEOUT=30000 to .mutagentrc │
39
+ │ │
40
+ │ [ Copy markdown ] [ Accept fix ] [ Dismiss ] │
41
+ └─────────────────────────────────────────────────────────────────┘
42
+ ```
43
+
44
+ ## RCA Chain Rules (from references/workflows/rca.md)
45
+
46
+ - No fixed depth — recurse until the ORIGIN is reached (a WHY that has no further cause)
47
+ - Every WHY node must cite evidence from the trace (not inference)
48
+ - Origin must map to one of the 8 WHERE categories
49
+
50
+ ## Finding JSON Shape (shown on demand via "Copy JSON")
51
+
52
+ ```json
53
+ {
54
+ "id": "f-001",
55
+ "severity": "critical",
56
+ "what": "tool-timeout",
57
+ "why": "env-config",
58
+ "where": "tool-invocation",
59
+ "summary": "Tool call timeout causing search failures",
60
+ "evidence": [...],
61
+ "whyChain": [
62
+ { "depth": 1, "reason": "...", "evidence": "..." },
63
+ { "depth": 2, "reason": "...", "evidence": "..." },
64
+ { "depth": 3, "reason": "...", "evidence": "..." }
65
+ ],
66
+ "origin": { "depth": 3, "reason": "...", "evidence": "..." },
67
+ "remedy": { ... }
68
+ }
69
+ ```
@@ -0,0 +1,53 @@
1
+ # WF-2.6 — Stale Diagnosis Warning
2
+
3
+ > Shown when the user tries to apply a fix, but the codebase has changed since diagnosis.
4
+ > `scripts/stale-detector.ts` detects this by comparing git hashes.
5
+
6
+ ## Trigger
7
+
8
+ User clicks "Accept fix" on a finding card in WF-2.4, but `stale-detector.ts` returns `stale=true`.
9
+
10
+ ## Display
11
+
12
+ ```
13
+ ┌─────────────────────────────────────────────────────────────────┐
14
+ │ ⚠ Stale Diagnosis │
15
+ │ │
16
+ │ The codebase has changed since this diagnosis was run. │
17
+ │ │
18
+ │ Diagnosed at: abc1234f (2026-05-27 09:00) │
19
+ │ Current HEAD: f4e2a991 (2026-05-27 10:42) │
20
+ │ Changed files: 3 │
21
+ │ │
22
+ │ Applying fixes from a stale diagnosis may be incorrect. │
23
+ │ │
24
+ │ [1] Re-run diagnostics on current HEAD (recommended) │
25
+ │ [2] Apply anyway (I know what I'm doing) │
26
+ │ [3] Cancel │
27
+ └─────────────────────────────────────────────────────────────────┘
28
+ ```
29
+
30
+ ## On "Re-run" (Recommended)
31
+
32
+ → Restart diagnostics from WF-2.1 with the same filters as the original run
33
+ → Previous report is archived to `.mutagent/diagnostics/reports/archived/`
34
+
35
+ ## On "Apply Anyway"
36
+
37
+ → Proceed to WF-3.1 with a `stale=true` flag in the audit record
38
+ → Audit.json will record `staleCheck.status = "stale-override"`
39
+ → PR title will include "(stale diagnosis)" suffix for visibility
40
+
41
+ ## Hash Comparison Logic
42
+
43
+ ```typescript
44
+ // scripts/stale-detector.ts
45
+ const diagnosedHash = audit.diagnosedAtHash; // hash at diagnosis time
46
+ const currentHash = getCurrentGitHash(); // HEAD at apply time
47
+
48
+ if (diagnosedHash !== currentHash) {
49
+ const changedFiles = getChangedFiles(diagnosedHash, currentHash);
50
+ return { stale: true, diagnosedHash, currentHash, changedFiles };
51
+ }
52
+ return { stale: false };
53
+ ```
@@ -0,0 +1,60 @@
1
+ # WF-1.1 — Welcome / Entry Point
2
+
3
+ > Phase 1 of onboarding: detect setup state and route user.
4
+ > Rendered as: numbered chat options (chat-multi-choice) or AskUserQuestion (Claude Code)
5
+
6
+ ## Trigger
7
+
8
+ User runs: `pnpx @mutagent/diagnostics init`
9
+
10
+ ## Setup State Detection
11
+
12
+ `scripts/setup/detect.ts` runs first:
13
+
14
+ ```
15
+ SetupState = "missing" | "partial" | "complete"
16
+ ```
17
+
18
+ ## Route Matrix
19
+
20
+ | State | Route |
21
+ |-------|-------|
22
+ | `missing` | → WF-1.2 (source platform picker) |
23
+ | `partial` | → WF-1.7 (resume partial setup) |
24
+ | `complete` | → WF-1.8 (run diagnostics now?) |
25
+
26
+ ## Display (State = "missing")
27
+
28
+ ```
29
+ ┌─────────────────────────────────────────────────────────────┐
30
+ │ mutagent-diagnostics — Setup │
31
+ │ │
32
+ │ Welcome! Let's configure diagnostics for your AI agents. │
33
+ │ │
34
+ │ This will take about 5 minutes. │
35
+ │ │
36
+ │ [1] Get started → (detect source platform) │
37
+ │ [2] Show what will be configured │
38
+ │ [3] Exit │
39
+ └─────────────────────────────────────────────────────────────┘
40
+ ```
41
+
42
+ ## Display (State = "partial")
43
+
44
+ ```
45
+ ┌─────────────────────────────────────────────────────────────┐
46
+ │ mutagent-diagnostics — Resume Setup │
47
+ │ │
48
+ │ Partial config found. Missing fields: │
49
+ │ • target.platform │
50
+ │ • ask_tool.runtime │
51
+ │ │
52
+ │ [1] Resume setup │
53
+ │ [2] Start over (backup existing config) │
54
+ │ [3] Exit │
55
+ └─────────────────────────────────────────────────────────────┘
56
+ ```
57
+
58
+ ## Display (State = "complete")
59
+
60
+ → Skip to WF-1.8
@@ -0,0 +1,41 @@
1
+ # WF-1.2 — Source Platform Picker
2
+
3
+ > Phase 2 of onboarding: pick the trace source platform.
4
+ > Prev: WF-1.1 | Next: WF-1.3
5
+
6
+ ## Display
7
+
8
+ ```
9
+ ┌─────────────────────────────────────────────────────────────┐
10
+ │ Step 1 of 7 — Where are your agent traces stored? │
11
+ │ │
12
+ │ [1] Langfuse (cloud or self-hosted) │
13
+ │ [2] OpenTelemetry / Jaeger (OTel-compatible backend) │
14
+ │ [3] Local JSONL file (.jsonl or .ndjson) │
15
+ │ [4] Claude Code sessions (auto-detected) │
16
+ │ [5] Codex CLI sessions (auto-detected) │
17
+ │ [6] I don't know yet (skip, configure later) │
18
+ └─────────────────────────────────────────────────────────────┘
19
+ ```
20
+
21
+ ## On Selection
22
+
23
+ | Choice | Action |
24
+ |--------|--------|
25
+ | 1 (Langfuse) | → WF-1.3a (Langfuse auth check) |
26
+ | 2 (OTel) | → WF-1.3b (OTel endpoint check) |
27
+ | 3 (Local JSONL) | → WF-1.3c (file path input) |
28
+ | 4 (Claude Code) | → probe `~/.claude/projects/` → WF-1.4 |
29
+ | 5 (Codex) | → probe `~/.codex/sessions/` → WF-1.4 |
30
+ | 6 (Skip) | → Set `source.platform: null` → WF-1.4 |
31
+
32
+ ## Validation
33
+
34
+ After selection, validate connectivity:
35
+ - Langfuse: `langfuse traces list --limit 1` → check exit code
36
+ - OTel: `curl -m 5 $ENDPOINT/health` → check response
37
+ - Local JSONL: `ls $FILE` → check file exists
38
+ - Claude Code: `ls ~/.claude/projects/` → count sessions
39
+ - Codex: `ls ~/.codex/sessions/` → count sessions
40
+
41
+ If validation fails → show inline error + offer retry or skip
@@ -0,0 +1,75 @@
1
+ # WF-1.3 — Source Auth / Connection
2
+
3
+ > Phase 3 of onboarding: configure source connectivity.
4
+ > Prev: WF-1.2 | Next: WF-1.4
5
+
6
+ ## WF-1.3a — Langfuse Auth
7
+
8
+ ```
9
+ ┌─────────────────────────────────────────────────────────────┐
10
+ │ Step 2 of 7 — Langfuse Connection │
11
+ │ │
12
+ │ Checking .mutagentrc for LANGFUSE_* keys... │
13
+ │ │
14
+ │ ✓ LANGFUSE_SECRET_KEY found │
15
+ │ ✓ LANGFUSE_PUBLIC_KEY found │
16
+ │ ✓ LANGFUSE_HOST found (https://cloud.langfuse.com) │
17
+ │ │
18
+ │ Testing connection... ✓ Connected (12 traces found) │
19
+ │ │
20
+ │ [1] Continue with this config │
21
+ │ [2] Use a different host │
22
+ └─────────────────────────────────────────────────────────────┘
23
+ ```
24
+
25
+ ### Keys Not Found Path
26
+
27
+ ```
28
+ ✗ LANGFUSE_SECRET_KEY not found in .mutagentrc
29
+
30
+ Add the following to your .mutagentrc file:
31
+
32
+ LANGFUSE_SECRET_KEY=sk-...
33
+ LANGFUSE_PUBLIC_KEY=pk-...
34
+ LANGFUSE_HOST=https://cloud.langfuse.com
35
+
36
+ [1] I've added the keys — retry
37
+ [2] Skip Langfuse, choose another source
38
+ ```
39
+
40
+ ## WF-1.3b — OTel Endpoint
41
+
42
+ ```
43
+ ┌─────────────────────────────────────────────────────────────┐
44
+ │ Step 2 of 7 — OTel Endpoint │
45
+ │ │
46
+ │ OTel endpoint (from .mutagentrc or enter): │
47
+ │ > http://localhost:4318 │
48
+ │ │
49
+ │ Testing connection... ✓ Jaeger reachable │
50
+ │ │
51
+ │ [1] Continue │
52
+ │ [2] Change endpoint │
53
+ └─────────────────────────────────────────────────────────────┘
54
+ ```
55
+
56
+ ## WF-1.3c — Local JSONL File
57
+
58
+ ```
59
+ ┌─────────────────────────────────────────────────────────────┐
60
+ │ Step 2 of 7 — JSONL File Path │
61
+ │ │
62
+ │ Path to your trace file (.jsonl or .ndjson): │
63
+ │ > traces.jsonl │
64
+ │ │
65
+ │ ✓ File found (247 lines) │
66
+ │ │
67
+ │ [1] Continue │
68
+ │ [2] Enter a different path │
69
+ └─────────────────────────────────────────────────────────────┘
70
+ ```
71
+
72
+ ## Key Rules
73
+
74
+ - NEVER prompt for key values — only prompt for key NAMES to check in .mutagentrc
75
+ - Keys are referenced by name in config.yaml — never stored as values
@@ -0,0 +1,48 @@
1
+ # WF-1.4 — Target Platform Picker
2
+
3
+ > Phase 4 of onboarding: pick the apply target.
4
+ > Prev: WF-1.3 | Next: WF-1.5
5
+
6
+ ## Display
7
+
8
+ ```
9
+ ┌─────────────────────────────────────────────────────────────┐
10
+ │ Step 3 of 7 — Where should fixes be applied? │
11
+ │ │
12
+ │ Target class: │
13
+ │ │
14
+ │ LOCAL AGENTS (config changes only, HITL review) │
15
+ │ [1] Claude Code (skills + settings) │
16
+ │ [2] Codex CLI (config.toml) │
17
+ │ [3] Cursor (.cursorrules + settings) │
18
+ │ [4] OpenCode (opencode.json) │
19
+ │ │
20
+ │ LOCAL CODE CONSTRUCTS (code edits via PR, lint gate) │
21
+ │ [5] Mastra.ai (TypeScript agents) │
22
+ │ [6] Cloud Agent SDK (Anthropic / OpenAI / Google / etc.) │
23
+ │ │
24
+ │ REMOTE (REST API mutations, HITL always required) │
25
+ │ [7] Cloud REST (Langfuse annotations, remote config) │
26
+ │ │
27
+ │ [8] Skip for now │
28
+ └─────────────────────────────────────────────────────────────┘
29
+ ```
30
+
31
+ ## On Selection
32
+
33
+ | Choice | Target Platform | Target Class |
34
+ |--------|-----------------|--------------|
35
+ | 1 | local-claude | local-agent |
36
+ | 2 | local-codex | local-agent |
37
+ | 3 | local-cursor | local-agent |
38
+ | 4 | local-opencode | local-agent |
39
+ | 5 | local-mastra | local-code-construct |
40
+ | 6 | local-cloud-agent-sdk | local-code-construct |
41
+ | 7 | cloud-rest | remote |
42
+ | 8 | null | null |
43
+
44
+ ## Target Class Explanation (shown inline)
45
+
46
+ - **local-agent**: reads config, proposes changes, you apply them (safe)
47
+ - **local-code-construct**: opens a PR branch, lint+typecheck gate before any merge
48
+ - **remote**: read-before-write, idempotent mutations, HITL confirmation for every change
@@ -0,0 +1,43 @@
1
+ # WF-1.5 — ASK Tool Selection
2
+
3
+ > Phase 5 of onboarding: configure the HITL interaction mode.
4
+ > Prev: WF-1.4 | Next: WF-1.6
5
+
6
+ ## Display
7
+
8
+ ```
9
+ ┌─────────────────────────────────────────────────────────────┐
10
+ │ Step 4 of 7 — How should I ask you questions? │
11
+ │ │
12
+ │ When diagnostics finds an issue and wants your input, │
13
+ │ how do you want to respond? │
14
+ │ │
15
+ │ [1] Claude Code (AskUserQuestion) │
16
+ │ Best if you're running this from Claude Code │
17
+ │ │
18
+ │ [2] Chat multi-choice │
19
+ │ Numbered options in the conversation │
20
+ │ Works everywhere: terminal, CLI, any chat │
21
+ │ │
22
+ └─────────────────────────────────────────────────────────────┘
23
+ ```
24
+
25
+ ## Auto-Detection
26
+
27
+ Before showing this screen, check if running in Claude Code:
28
+ - `process.env.CLAUDE_CODE_ENTRYPOINT` set → suggest [1] (Claude Code)
29
+ - Otherwise → suggest [2] (chat-multi-choice)
30
+
31
+ ## On Selection
32
+
33
+ | Choice | `ask_tool.runtime` |
34
+ |--------|--------------------|
35
+ | 1 | `claude-code` |
36
+ | 2 | `chat-multi-choice` |
37
+
38
+ ## Context Note
39
+
40
+ The ASK tool selection affects:
41
+ - Destructive-action gates: `AskUserQuestion` in Claude Code vs numbered prompt in chat
42
+ - HTML report copy-back: auto-paste to conversation (Claude Code) vs manual copy prompt (chat)
43
+ - No functional difference for read-only diagnostics — only matters at apply time