@mindrian_os/cli 1.13.0-beta.10 → 1.13.0-beta.43

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (590) hide show
  1. package/CHANGELOG.md +340 -13
  2. package/README.md +76 -579
  3. package/bin/cli.js +166 -40
  4. package/lib/core/active-plugin-root.cjs +207 -0
  5. package/package.json +7 -13
  6. package/.claude-plugin/plugin.json +0 -21
  7. package/.mcp.json +0 -9
  8. package/agents/brain-query.md +0 -80
  9. package/agents/framework-runner.md +0 -237
  10. package/agents/grading.md +0 -188
  11. package/agents/investor.md +0 -128
  12. package/agents/larry-extended.md +0 -135
  13. package/agents/opportunity-scanner.md +0 -91
  14. package/agents/persona-analyst.md +0 -132
  15. package/agents/research.md +0 -89
  16. package/agents/reverse-salient-agent.md +0 -27
  17. package/bin/mindrian-mcp-server.cjs +0 -182
  18. package/bin/mindrian-tools.cjs +0 -765
  19. package/commands/act.md +0 -433
  20. package/commands/admin.md +0 -404
  21. package/commands/analyze-needs.md +0 -36
  22. package/commands/analyze-systems.md +0 -33
  23. package/commands/analyze-timing.md +0 -36
  24. package/commands/auto-explore.md +0 -64
  25. package/commands/beautiful-question.md +0 -34
  26. package/commands/brain-derive.md +0 -78
  27. package/commands/build-knowledge.md +0 -36
  28. package/commands/build-thesis.md +0 -40
  29. package/commands/causal.md +0 -228
  30. package/commands/challenge-assumptions.md +0 -33
  31. package/commands/compare-ventures.md +0 -77
  32. package/commands/dashboard.md +0 -110
  33. package/commands/deep-grade.md +0 -76
  34. package/commands/diagnose.md +0 -52
  35. package/commands/diagnostics.md +0 -145
  36. package/commands/doctor.md +0 -151
  37. package/commands/dominant-designs.md +0 -34
  38. package/commands/explain-decision.md +0 -87
  39. package/commands/explore-domains.md +0 -36
  40. package/commands/explore-futures.md +0 -34
  41. package/commands/explore-trends.md +0 -36
  42. package/commands/export.md +0 -103
  43. package/commands/file-meeting.md +0 -724
  44. package/commands/find-analogies.md +0 -182
  45. package/commands/find-bottlenecks.md +0 -56
  46. package/commands/find-connections.md +0 -70
  47. package/commands/funding.md +0 -81
  48. package/commands/grade.md +0 -197
  49. package/commands/graph.md +0 -128
  50. package/commands/hat-briefing.md +0 -119
  51. package/commands/heal.md +0 -196
  52. package/commands/help.md +0 -399
  53. package/commands/hmi-status.md +0 -172
  54. package/commands/jtbd.md +0 -241
  55. package/commands/leadership.md +0 -73
  56. package/commands/lean-canvas.md +0 -34
  57. package/commands/macro-trends.md +0 -34
  58. package/commands/map-unknowns.md +0 -34
  59. package/commands/memory.md +0 -173
  60. package/commands/models.md +0 -175
  61. package/commands/mos-reason.md +0 -279
  62. package/commands/mullins.md +0 -114
  63. package/commands/new-project.md +0 -481
  64. package/commands/onboard.md +0 -434
  65. package/commands/operator.md +0 -149
  66. package/commands/opportunities.md +0 -144
  67. package/commands/organize.md +0 -497
  68. package/commands/persona.md +0 -192
  69. package/commands/pipeline.md +0 -106
  70. package/commands/present.md +0 -91
  71. package/commands/publish.md +0 -201
  72. package/commands/query.md +0 -124
  73. package/commands/radar.md +0 -72
  74. package/commands/reanalyze.md +0 -91
  75. package/commands/research.md +0 -190
  76. package/commands/room.md +0 -352
  77. package/commands/rooms.md +0 -598
  78. package/commands/root-cause.md +0 -34
  79. package/commands/rs-experts.md +0 -79
  80. package/commands/rs-explain.md +0 -94
  81. package/commands/rs-fetch.md +0 -88
  82. package/commands/rs-thesis.md +0 -79
  83. package/commands/scenario-plan.md +0 -34
  84. package/commands/scheduled-tasks.md +0 -285
  85. package/commands/score-innovation.md +0 -37
  86. package/commands/scout.md +0 -239
  87. package/commands/setup.md +0 -618
  88. package/commands/snapshot.md +0 -147
  89. package/commands/speakers.md +0 -84
  90. package/commands/splash.md +0 -28
  91. package/commands/status.md +0 -75
  92. package/commands/structure-argument.md +0 -36
  93. package/commands/suggest-next.md +0 -74
  94. package/commands/systems-thinking.md +0 -34
  95. package/commands/think-hats.md +0 -36
  96. package/commands/update.md +0 -181
  97. package/commands/user-needs.md +0 -34
  98. package/commands/validate.md +0 -34
  99. package/commands/value-proposition.md +0 -55
  100. package/commands/vault.md +0 -180
  101. package/commands/visualize.md +0 -52
  102. package/commands/whitespace.md +0 -501
  103. package/commands/wiki.md +0 -69
  104. package/hooks/hooks.json +0 -381
  105. package/hooks/run-hook.cmd +0 -64
  106. package/lib/__init__.py +0 -0
  107. package/lib/__pycache__/__init__.cpython-312.pyc +0 -0
  108. package/lib/agents/auto-explore-agent.cjs +0 -1043
  109. package/lib/agents/reverse-salient-agent.cjs +0 -679
  110. package/lib/agents/tension-hook-agent.cjs +0 -544
  111. package/lib/chat/chat-context.js +0 -185
  112. package/lib/chat/chat-panel.js +0 -721
  113. package/lib/chat/fabric-chat.cjs +0 -288
  114. package/lib/chat/generative-tools.js +0 -219
  115. package/lib/conversation/ROOM.md +0 -39
  116. package/lib/conversation/classifier-rules.json +0 -38
  117. package/lib/conversation/classifier.cjs +0 -264
  118. package/lib/conversation/operator.cjs +0 -287
  119. package/lib/copy/115-spec-strings.cjs +0 -55
  120. package/lib/core/__init__.py +0 -0
  121. package/lib/core/__nav-stub.cjs +0 -14
  122. package/lib/core/__pycache__/__init__.cpython-312.pyc +0 -0
  123. package/lib/core/__pycache__/rs-math.cpython-312.pyc +0 -0
  124. package/lib/core/__pycache__/rs_cache.cpython-312.pyc +0 -0
  125. package/lib/core/__pycache__/rs_corpus.cpython-312.pyc +0 -0
  126. package/lib/core/__pycache__/rs_hybrid.cpython-312.pyc +0 -0
  127. package/lib/core/__pycache__/rs_math.cpython-312.pyc +0 -0
  128. package/lib/core/__pycache__/rs_rooms.cpython-312.pyc +0 -0
  129. package/lib/core/artifact-id.cjs +0 -148
  130. package/lib/core/asset-ops.cjs +0 -151
  131. package/lib/core/auto-commit-throttle.cjs +0 -129
  132. package/lib/core/bearer-token.cjs +0 -199
  133. package/lib/core/brain-client.cjs +0 -865
  134. package/lib/core/brain-derivation-prompts.cjs +0 -326
  135. package/lib/core/brain-derivation-queue.cjs +0 -431
  136. package/lib/core/brain-derivation.cjs +0 -580
  137. package/lib/core/brain-md-schema.cjs +0 -528
  138. package/lib/core/brain-md-staleness.cjs +0 -357
  139. package/lib/core/brain-response-sanitize.cjs +0 -188
  140. package/lib/core/bridge-writer.cjs +0 -477
  141. package/lib/core/chat-context-builder.cjs +0 -253
  142. package/lib/core/cross-room-aggregator.cjs +0 -762
  143. package/lib/core/daily-briefing.cjs +0 -438
  144. package/lib/core/decision-capture.cjs +0 -618
  145. package/lib/core/deep-links.cjs +0 -82
  146. package/lib/core/dispatch-optimizer.cjs +0 -354
  147. package/lib/core/dual-path-detector.cjs +0 -84
  148. package/lib/core/dual-path-detector.test.cjs +0 -334
  149. package/lib/core/exports-log.cjs +0 -79
  150. package/lib/core/feynman-minto-invariants.cjs +0 -605
  151. package/lib/core/folder-memory-async.cjs +0 -338
  152. package/lib/core/folder-memory-shared.cjs +0 -890
  153. package/lib/core/folder-memory.cjs +0 -416
  154. package/lib/core/framework-chain-composer.cjs +0 -411
  155. package/lib/core/frontmatter-schemas.cjs +0 -330
  156. package/lib/core/git-ops.cjs +0 -141
  157. package/lib/core/graph-ops.cjs +0 -258
  158. package/lib/core/hat-persistence.cjs +0 -362
  159. package/lib/core/index.cjs +0 -60
  160. package/lib/core/integration-registry.cjs +0 -232
  161. package/lib/core/intelligence-cascade.cjs +0 -661
  162. package/lib/core/lazygraph-ops.cjs +0 -1057
  163. package/lib/core/lru-cache.cjs +0 -139
  164. package/lib/core/mcp-profiles.cjs +0 -182
  165. package/lib/core/meeting-ops.cjs +0 -54
  166. package/lib/core/memory-ops.cjs +0 -600
  167. package/lib/core/migrations/ROOM.md +0 -33
  168. package/lib/core/migrations/phase-109-nodes-provenance.cjs +0 -339
  169. package/lib/core/migrations/phase-109-session-focus.cjs +0 -99
  170. package/lib/core/model-profiles.cjs +0 -246
  171. package/lib/core/mullins-scaffold.cjs +0 -160
  172. package/lib/core/nav-dial.cjs +0 -316
  173. package/lib/core/navigation/ROOM.md +0 -15
  174. package/lib/core/navigation/explanation.cjs +0 -43
  175. package/lib/core/navigation/focus.cjs +0 -135
  176. package/lib/core/navigation/ingestion.cjs +0 -82
  177. package/lib/core/navigation/insights.cjs +0 -350
  178. package/lib/core/navigation/memory-events.cjs +0 -118
  179. package/lib/core/navigation/neighborhood.cjs +0 -78
  180. package/lib/core/navigation/packet.cjs +0 -182
  181. package/lib/core/navigation/room-home.cjs +0 -127
  182. package/lib/core/navigation/transitions.cjs +0 -82
  183. package/lib/core/navigation-engine-shared.cjs +0 -242
  184. package/lib/core/navigation-engine.cjs +0 -664
  185. package/lib/core/navigation.cjs +0 -60
  186. package/lib/core/nl-graph-queries.cjs +0 -164
  187. package/lib/core/offer-presenter.cjs +0 -406
  188. package/lib/core/opportunity-extractor.cjs +0 -183
  189. package/lib/core/opportunity-ops.cjs +0 -1371
  190. package/lib/core/persona-ops.cjs +0 -537
  191. package/lib/core/persona-taxonomy.cjs +0 -190
  192. package/lib/core/platform-gates.cjs +0 -120
  193. package/lib/core/platform.cjs +0 -257
  194. package/lib/core/proactive-intelligence.cjs +0 -528
  195. package/lib/core/problem-type-router.cjs +0 -315
  196. package/lib/core/reasoning-ops.cjs +0 -639
  197. package/lib/core/reverse-salient-persona-suffix.cjs +0 -115
  198. package/lib/core/room-classifier-strict-mode.cjs +0 -229
  199. package/lib/core/room-db.cjs +0 -127
  200. package/lib/core/room-ops-async.cjs +0 -92
  201. package/lib/core/room-ops-shared.cjs +0 -64
  202. package/lib/core/room-ops-sync.cjs +0 -70
  203. package/lib/core/room-ops.cjs +0 -32
  204. package/lib/core/room-type-detector.cjs +0 -386
  205. package/lib/core/rs-brain-substrate-prompts.cjs +0 -129
  206. package/lib/core/rs-brain-substrate.cjs +0 -570
  207. package/lib/core/rs-breakthrough-scorer.cjs +0 -255
  208. package/lib/core/rs-canon-violations.cjs +0 -82
  209. package/lib/core/rs-chain-feeder.cjs +0 -343
  210. package/lib/core/rs-commercial-assessor.cjs +0 -280
  211. package/lib/core/rs-differential-scorer.cjs +0 -376
  212. package/lib/core/rs-domain-analyzer.cjs +0 -385
  213. package/lib/core/rs-egress-prompts.cjs +0 -113
  214. package/lib/core/rs-egress-telemetry.cjs +0 -225
  215. package/lib/core/rs-egress-violations.cjs +0 -53
  216. package/lib/core/rs-expert-mapper.cjs +0 -467
  217. package/lib/core/rs-fetcher-academic.cjs +0 -697
  218. package/lib/core/rs-fetcher-experts.cjs +0 -314
  219. package/lib/core/rs-fetcher-industry.cjs +0 -731
  220. package/lib/core/rs-fetcher-patents.cjs +0 -564
  221. package/lib/core/rs-innovation-classifier.cjs +0 -194
  222. package/lib/core/rs-mind-map.cjs +0 -656
  223. package/lib/core/rs-neo4j-writer.cjs +0 -388
  224. package/lib/core/rs-nl-to-query.cjs +0 -425
  225. package/lib/core/rs-pinecone-bridge.cjs +0 -303
  226. package/lib/core/rs-preprocessor.cjs +0 -350
  227. package/lib/core/rs-query-matrix.cjs +0 -316
  228. package/lib/core/rs-query-to-text.cjs +0 -438
  229. package/lib/core/rs-sqlite-mirror.cjs +0 -443
  230. package/lib/core/rs-thesis-generator.cjs +0 -188
  231. package/lib/core/rs_cache.py +0 -479
  232. package/lib/core/rs_corpus.py +0 -468
  233. package/lib/core/rs_hybrid.py +0 -586
  234. package/lib/core/rs_math.py +0 -287
  235. package/lib/core/rs_rooms.py +0 -193
  236. package/lib/core/scheduled-scanner.cjs +0 -463
  237. package/lib/core/scratchpad-ops.cjs +0 -201
  238. package/lib/core/section-8-trace-schema.cjs +0 -138
  239. package/lib/core/section-registry.cjs +0 -111
  240. package/lib/core/session-state.cjs +0 -144
  241. package/lib/core/shallow-doc-parser.cjs +0 -174
  242. package/lib/core/shallow-doc-parser.test.cjs +0 -226
  243. package/lib/core/skill-activation-router.cjs +0 -284
  244. package/lib/core/state-ops.cjs +0 -46
  245. package/lib/core/statusline-cache.cjs +0 -266
  246. package/lib/core/token-estimator.cjs +0 -348
  247. package/lib/core/user-archetype.cjs +0 -239
  248. package/lib/core/user-md-ops.cjs +0 -524
  249. package/lib/core/visual-ops.cjs +0 -624
  250. package/lib/core/write-lock.cjs +0 -149
  251. package/lib/graph/canvas-graph.js +0 -467
  252. package/lib/graph/constellation-config.cjs +0 -299
  253. package/lib/graph/graph-detail-panel.js +0 -165
  254. package/lib/hmi/ROOM.md +0 -47
  255. package/lib/hmi/across-session-memory.cjs +0 -604
  256. package/lib/hmi/cross-room-memory.cjs +0 -575
  257. package/lib/hmi/decoy-tier.cjs +0 -395
  258. package/lib/hmi/jtbd-classifier.cjs +0 -219
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  275. package/lib/import/PRECONDITIONS.md +0 -41
  276. package/lib/import/branding.cjs +0 -210
  277. package/lib/import/branding.test.cjs +0 -235
  278. package/lib/import/classifications-sync.cjs +0 -104
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  298. package/lib/import/test-fixtures/collision-vault/preexisting-room/STATE.md +0 -8
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  339. package/lib/memory/brain-server-resolution.test.cjs +0 -314
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  342. package/lib/memory/dashboard-server.test.cjs +0 -256
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@@ -1,649 +0,0 @@
1
- #!/usr/bin/env node
2
- 'use strict';
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-
4
- /*
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- * Copyright (c) 2026 Mindrian. BSL 1.1.
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- * Phase 89.3 Plan 02 -- SQLite mirror writer fixture suite.
7
- *
8
- * writeDiscovery(pair, opts) is the Tier 0 (Aura-unavailable) writer in the
9
- * dual-tier output layer. Mirrors the rs-neo4j-writer.cjs (Plan 89.3-01)
10
- * public API surface byte-for-byte so callers swap backends transparently.
11
- *
12
- * Schema parity (per kickoff section 5):
13
- * Nodes: RSDiscovery + ReverseSalient + Innovation + Paper + Author + Institution
14
- * Edges: DISCOVERED + DERIVED_FROM + ENABLES + AUTHORED_BY + AFFILIATED_WITH
15
- *
16
- * REAL idempotency in SQLite via INSERT OR REPLACE on the id PRIMARY KEY:
17
- * the 3 core node ids (discovery_id, rs_id, innovation_id) are derived
18
- * sha256 over {query_concept, doc_concept, classification}. Same pair
19
- * always produces same ids; INSERT OR REPLACE matches existing rows;
20
- * SELECT COUNT before vs after re-run = same number.
21
- *
22
- * 12 scenarios + A1 sweep:
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- * 1 Happy path (minimal pair, no opts.context)
24
- * 2 REAL idempotency via INSERT OR REPLACE (re-run yields zero new rows)
25
- * 3 Full happy path with opts.context (papers + experts)
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- * 4 All 5 edge types written (DISCOVERED + DERIVED_FROM + ENABLES + AUTHORED_BY + AFFILIATED_WITH)
27
- * 5 Rollback SQL captured + valid (3 DELETE FROM nodes + edges-first DELETE)
28
- * 6 Missing classification throws TypeError
29
- * 7 Missing thesis throws TypeError
30
- * 8 room.db missing or unwritable throws SQLiteUnreachableError
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- * 9 CANON PART 8 adversarial -- forbidden in pair.thesis
32
- * 10 CANON PART 8 adversarial -- forbidden in pair.bridge_concept
33
- * 11 CANON PART 8 adversarial -- forbidden in pair.query_concept
34
- * 12 CANON PART 8 adversarial -- forbidden smuggled via opts.context.experts[0].institution
35
- *
36
- * End-of-suite sweep:
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- * A1: SELECT every row from the test room.db (nodes + edges) JSON.stringify
38
- * and scan against FORBIDDEN_PATTERNS. Asserts zero hits across the
39
- * FINAL state of the database after all 12 scenarios. (Throw scenarios
40
- * verify zero rows added at the time; A1 verifies no smuggled bytes
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- * anywhere in final state.)
42
- *
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- * Pure CJS, zero npm deps, node built-ins only (assert, fs, path, os, crypto).
44
- */
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-
46
- const assert = require('node:assert/strict');
47
- const fs = require('node:fs');
48
- const path = require('node:path');
49
- const os = require('node:os');
50
- const crypto = require('node:crypto');
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-
52
- const REPO_ROOT = path.resolve(__dirname, '..', '..');
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-
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- // Source of truth for parity gate.
55
- const crossRoomAggregator = require('../core/cross-room-aggregator.cjs');
56
- const FORBIDDEN_PATTERNS = crossRoomAggregator.FORBIDDEN_PATTERNS;
57
-
58
- // Lazy-required (so RED commit can prove module-not-found).
59
- const lazygraph = require('../core/lazygraph-ops.cjs');
60
-
61
- // Track every tmp room dir for cleanup + final A1 sweep target.
62
- const tmpRooms = [];
63
-
64
- let passed = 0;
65
- let failed = 0;
66
- const failures = [];
67
-
68
- function resetRequireCache() {
69
- const targets = [
70
- '../core/rs-egress-violations.cjs',
71
- '../core/rs-egress-prompts.cjs',
72
- '../core/cross-room-aggregator.cjs',
73
- '../core/rs-sqlite-mirror.cjs',
74
- ];
75
- for (const t of targets) {
76
- try {
77
- const p = require.resolve(t);
78
- delete require.cache[p];
79
- } catch (_e) { /* best effort */ }
80
- }
81
- }
82
-
83
- async function runScenario(name, fn) {
84
- const start = Date.now();
85
- try {
86
- await fn();
87
- passed += 1;
88
- process.stdout.write(' ok ' + name + ' (' + (Date.now() - start) + 'ms)\n');
89
- } catch (err) {
90
- failed += 1;
91
- failures.push({ name: name, err: err });
92
- process.stderr.write(' FAIL ' + name + '\n');
93
- process.stderr.write(' ' + (err && err.stack ? err.stack : err) + '\n');
94
- } finally {
95
- resetRequireCache();
96
- }
97
- }
98
-
99
- // ---------- Tmp room helper ----------
100
- //
101
- // Creates a fresh tmp room dir at os.tmpdir() with a UUID suffix. The
102
- // rs-sqlite-mirror writer calls lazygraph.openGraph(roomDir), which
103
- // creates room/.mindrian/room.db on demand and runs initSchema. We do
104
- // NOT pre-create room.db here; the writer must handle the creation.
105
- //
106
- // Returns {roomDir, cleanup} where cleanup() removes the entire tmp
107
- // subtree. Caller MUST call cleanup() in finally even on assertion error.
108
-
109
- function makeTmpRoom() {
110
- const slug = crypto.randomUUID();
111
- const roomDir = path.join(os.tmpdir(), 'mos-89-3-02-' + slug);
112
- fs.mkdirSync(roomDir, { recursive: true });
113
- tmpRooms.push(roomDir);
114
- return {
115
- roomDir: roomDir,
116
- cleanup: function () {
117
- try {
118
- fs.rmSync(roomDir, { recursive: true, force: true });
119
- } catch (_e) { /* best effort */ }
120
- },
121
- };
122
- }
123
-
124
- // SELECT helpers run against an open connection. Caller responsible for
125
- // open/close.
126
-
127
- async function countNodes(roomDir) {
128
- const handle = await lazygraph.openGraph(roomDir);
129
- try {
130
- const row = handle.conn.prepare('SELECT COUNT(*) AS n FROM nodes').get();
131
- return row.n;
132
- } finally {
133
- await lazygraph.closeGraph(handle.db);
134
- }
135
- }
136
-
137
- async function countEdges(roomDir) {
138
- const handle = await lazygraph.openGraph(roomDir);
139
- try {
140
- const row = handle.conn.prepare('SELECT COUNT(*) AS n FROM edges').get();
141
- return row.n;
142
- } finally {
143
- await lazygraph.closeGraph(handle.db);
144
- }
145
- }
146
-
147
- async function selectAllNodes(roomDir) {
148
- const handle = await lazygraph.openGraph(roomDir);
149
- try {
150
- return handle.conn.prepare('SELECT id, type, properties FROM nodes').all();
151
- } finally {
152
- await lazygraph.closeGraph(handle.db);
153
- }
154
- }
155
-
156
- async function selectAllEdges(roomDir) {
157
- const handle = await lazygraph.openGraph(roomDir);
158
- try {
159
- return handle.conn.prepare('SELECT source, target, type, properties FROM edges').all();
160
- } finally {
161
- await lazygraph.closeGraph(handle.db);
162
- }
163
- }
164
-
165
- async function selectDistinctEdgeTypes(roomDir) {
166
- const handle = await lazygraph.openGraph(roomDir);
167
- try {
168
- return handle.conn.prepare('SELECT DISTINCT type FROM edges').all().map(function (r) { return r.type; });
169
- } finally {
170
- await lazygraph.closeGraph(handle.db);
171
- }
172
- }
173
-
174
- // ---------- Fixture builders ----------
175
-
176
- function makeCleanPair(overrides) {
177
- const base = {
178
- query_concept: 'CRISPR delivery',
179
- doc_concept: 'liposome targeting',
180
- diff: 0.4,
181
- lsa: 0.5,
182
- bert: 0.1,
183
- passes: true,
184
- classification: 'structural_transfer',
185
- bridge_concept: 'cross-domain isomorphism',
186
- breakthrough: {
187
- score: 5.9,
188
- breakdown: { feasibility: 2, market: 1.5, magnitude: 1, advantage: 1.4, impact: 0 },
189
- dominant_dimension: 'feasibility',
190
- },
191
- thesis: 'By applying CRISPR delivery to liposome targeting, achieve feasible novel transfer because isomorphic structure transfers under cross-domain isomorphism.',
192
- };
193
- if (overrides) {
194
- for (const k of Object.keys(overrides)) {
195
- base[k] = overrides[k];
196
- }
197
- }
198
- return base;
199
- }
200
-
201
- function makeFullContext() {
202
- return {
203
- papers: [
204
- {
205
- id: 'openalex:W123',
206
- title: 'CRISPR delivery via liposomes',
207
- authors: [{ name: 'Smith, Jane', orcid: '0000-0001-2345-6789', institution: 'Stanford' }],
208
- doi: '10.1038/sample.2026',
209
- source: 'openalex',
210
- },
211
- ],
212
- experts: [
213
- {
214
- name: 'Smith, Jane',
215
- orcid: '0000-0001-2345-6789',
216
- institution: 'Stanford',
217
- paper_count: 1,
218
- h_index_estimate: 1,
219
- public_email_or_null: null,
220
- },
221
- ],
222
- room_id: 'test-room',
223
- domain: 'biotech',
224
- };
225
- }
226
-
227
- // Final-state sweep target. The single shared room used by Tests 1, 2, 3,
228
- // 4, 5 (happy paths). Throw scenarios use their own fresh tmp rooms so
229
- // the assertion zero-rows-added is unambiguous.
230
- let SHARED_ROOM = null;
231
-
232
- // ---------- Scenarios ----------
233
-
234
- async function scenario1HappyPathMinimal() {
235
- const m = require('../core/rs-sqlite-mirror.cjs');
236
- const tmp = makeTmpRoom();
237
- SHARED_ROOM = tmp;
238
- try {
239
- const pair = makeCleanPair();
240
- const result = await m.writeDiscovery(pair, { roomDir: tmp.roomDir });
241
-
242
- assert.equal(result.wrote_node_count, 3, 'wrote_node_count must be 3, got ' + result.wrote_node_count);
243
- assert.equal(result.wrote_edge_count, 3, 'wrote_edge_count must be 3, got ' + result.wrote_edge_count);
244
- assert.equal(result.schema_version, '1.0', 'schema_version must be 1.0');
245
- assert.ok(typeof result.aura_op_id === 'string' && result.aura_op_id.length > 0, 'aura_op_id must be non-empty string');
246
- assert.ok(typeof result.rollback_cypher === 'string' && result.rollback_cypher.length > 0, 'rollback_cypher must be non-empty string');
247
- // Verify SQL DELETE statements (NOT Cypher DETACH DELETE).
248
- assert.ok(/DELETE FROM nodes/.test(result.rollback_cypher), 'rollback_cypher must contain DELETE FROM nodes');
249
- assert.ok(/DELETE FROM edges/.test(result.rollback_cypher), 'rollback_cypher must contain DELETE FROM edges');
250
- // SELECT verification: 3 nodes + 3 edges in the room.
251
- assert.equal(await countNodes(tmp.roomDir), 3, 'room.db must have 3 nodes after happy path');
252
- assert.equal(await countEdges(tmp.roomDir), 3, 'room.db must have 3 edges after happy path');
253
- } catch (err) {
254
- tmp.cleanup();
255
- SHARED_ROOM = null;
256
- throw err;
257
- }
258
- // Do NOT cleanup the SHARED_ROOM here -- Tests 2, 3, 4, 5 reuse it.
259
- // Cleanup happens in main() after A1 sweep.
260
- }
261
-
262
- async function scenario2RealIdempotencyViaInsertOrReplace() {
263
- // Reuses SHARED_ROOM from Test 1 (3 nodes + 3 edges already present).
264
- assert.ok(SHARED_ROOM, 'SHARED_ROOM must be initialized by Test 1');
265
- const m = require('../core/rs-sqlite-mirror.cjs');
266
-
267
- // Part A: buildDeterministicIds returns byte-identical ids on repeat calls
268
- // AND matches the format from Plan 89.3-01 (rsd-/rs-/inn- + 16-hex).
269
- assert.ok(m._test && m._test.buildDeterministicIds, '_test.buildDeterministicIds must be exposed');
270
- const pair = makeCleanPair();
271
- const ids1 = m._test.buildDeterministicIds(pair);
272
- const ids2 = m._test.buildDeterministicIds(pair);
273
- assert.equal(ids1.discovery_id, ids2.discovery_id, 'discovery_id must be byte-identical across calls');
274
- assert.equal(ids1.rs_id, ids2.rs_id, 'rs_id must be byte-identical across calls');
275
- assert.equal(ids1.innovation_id, ids2.innovation_id, 'innovation_id must be byte-identical across calls');
276
- assert.ok(/^rsd-[0-9a-f]{16}$/.test(ids1.discovery_id), 'discovery_id format must be rsd-<16-hex>, got ' + ids1.discovery_id);
277
- assert.ok(/^rs-[0-9a-f]{16}$/.test(ids1.rs_id), 'rs_id format must be rs-<16-hex>, got ' + ids1.rs_id);
278
- assert.ok(/^inn-[0-9a-f]{16}$/.test(ids1.innovation_id), 'innovation_id format must be inn-<16-hex>, got ' + ids1.innovation_id);
279
-
280
- // Part B: REAL SQLite idempotency via INSERT OR REPLACE on PRIMARY KEY.
281
- // Re-run writeDiscovery with same pair on SHARED_ROOM (already has 3 nodes
282
- // + 3 edges). After re-run: still 3 nodes + 3 edges. wrote_node_count = 0.
283
- const beforeNodes = await countNodes(SHARED_ROOM.roomDir);
284
- const beforeEdges = await countEdges(SHARED_ROOM.roomDir);
285
- assert.equal(beforeNodes, 3, 'before re-run: room.db must have 3 nodes');
286
- assert.equal(beforeEdges, 3, 'before re-run: room.db must have 3 edges');
287
-
288
- const result = await m.writeDiscovery(pair, { roomDir: SHARED_ROOM.roomDir });
289
-
290
- const afterNodes = await countNodes(SHARED_ROOM.roomDir);
291
- const afterEdges = await countEdges(SHARED_ROOM.roomDir);
292
- assert.equal(afterNodes, 3, 'AFTER re-run: room.db must STILL have 3 nodes (INSERT OR REPLACE matched on PRIMARY KEY)');
293
- assert.equal(afterEdges, 3, 'AFTER re-run: room.db must STILL have 3 edges');
294
- assert.equal(result.wrote_node_count, 0, 'second call wrote_node_count must be 0 (zero new rows), got ' + result.wrote_node_count);
295
- assert.equal(result.wrote_edge_count, 0, 'second call wrote_edge_count must be 0, got ' + result.wrote_edge_count);
296
- // aura_op_id is per-op telemetry: random and DIFFERENT across calls.
297
- // (Compare against fresh writeDiscovery call to prove non-determinism.)
298
- const result2 = await m.writeDiscovery(pair, { roomDir: SHARED_ROOM.roomDir });
299
- assert.notEqual(result.aura_op_id, result2.aura_op_id, 'aura_op_id must differ across calls (random per-op telemetry)');
300
- }
301
-
302
- async function scenario3FullHappyPathWithContext() {
303
- // Use a FRESH room so the count assertions are unambiguous (Test 1's
304
- // SHARED_ROOM has minimal pair already; mixing would muddy the count).
305
- const m = require('../core/rs-sqlite-mirror.cjs');
306
- const tmp = makeTmpRoom();
307
- try {
308
- const pair = makeCleanPair();
309
- const ctx = makeFullContext();
310
- const result = await m.writeDiscovery(pair, { roomDir: tmp.roomDir, context: ctx });
311
-
312
- assert.equal(result.wrote_node_count, 6, 'wrote_node_count must be 6 (3 core + Paper + Author + Institution), got ' + result.wrote_node_count);
313
- assert.equal(result.wrote_edge_count, 6, 'wrote_edge_count must be 6, got ' + result.wrote_edge_count);
314
-
315
- // Verify the 6 nodes via SELECT.
316
- const nodes = await selectAllNodes(tmp.roomDir);
317
- assert.equal(nodes.length, 6, 'SELECT must return 6 nodes');
318
- const types = nodes.map(function (n) { return n.type; }).sort();
319
- // Expected types (sorted): Author, Innovation, Institution, Paper, RSDiscovery, ReverseSalient
320
- const expectedTypes = ['Author', 'Innovation', 'Institution', 'Paper', 'RSDiscovery', 'ReverseSalient'];
321
- assert.deepEqual(types, expectedTypes, 'node types must include all 6 expected: ' + JSON.stringify(types));
322
- } finally {
323
- // Do NOT cleanup yet -- Test 4 reuses this assertion pattern but on its own room.
324
- // Final cleanup in main().
325
- }
326
- }
327
-
328
- async function scenario4AllFiveEdgeTypesWritten() {
329
- const m = require('../core/rs-sqlite-mirror.cjs');
330
- const tmp = makeTmpRoom();
331
- try {
332
- const pair = makeCleanPair();
333
- const ctx = makeFullContext();
334
- await m.writeDiscovery(pair, { roomDir: tmp.roomDir, context: ctx });
335
-
336
- const distinctTypes = await selectDistinctEdgeTypes(tmp.roomDir);
337
- const expected = ['DISCOVERED', 'DERIVED_FROM', 'ENABLES', 'AUTHORED_BY', 'AFFILIATED_WITH'];
338
- for (const e of expected) {
339
- assert.ok(distinctTypes.indexOf(e) !== -1, 'distinct edge types must include ' + e + '; got: ' + JSON.stringify(distinctTypes));
340
- }
341
- // Strict: 5 of 5 expected types present.
342
- let hits = 0;
343
- for (const e of expected) if (distinctTypes.indexOf(e) !== -1) hits += 1;
344
- assert.equal(hits, 5, 'all 5 edge types must be present, got ' + hits);
345
- } finally {
346
- // No cleanup -- final A1 sweep covers all tmp rooms.
347
- }
348
- }
349
-
350
- async function scenario5RollbackSqlCaptured() {
351
- const m = require('../core/rs-sqlite-mirror.cjs');
352
- const tmp = makeTmpRoom();
353
- try {
354
- const pair = makeCleanPair();
355
- const result = await m.writeDiscovery(pair, { roomDir: tmp.roomDir });
356
-
357
- assert.ok(typeof result.rollback_cypher === 'string', 'rollback_cypher must be a string');
358
- assert.ok(result.rollback_cypher.length > 0, 'rollback_cypher must be non-empty');
359
- // Exactly 3 'DELETE FROM nodes WHERE id =' statements.
360
- const nodeDeleteCount = (result.rollback_cypher.match(/DELETE FROM nodes WHERE id =/g) || []).length;
361
- assert.equal(nodeDeleteCount, 3, 'rollback_cypher must have exactly 3 DELETE FROM nodes WHERE id = statements, got ' + nodeDeleteCount);
362
- // At least 3 'DELETE FROM edges WHERE source =' statements.
363
- const edgeDeleteCount = (result.rollback_cypher.match(/DELETE FROM edges WHERE source =/g) || []).length;
364
- assert.ok(edgeDeleteCount >= 3, 'rollback_cypher must have >= 3 DELETE FROM edges statements, got ' + edgeDeleteCount);
365
- // Edges-first ordering: first DELETE FROM edges position must be < first DELETE FROM nodes position.
366
- const firstEdgeDel = result.rollback_cypher.indexOf('DELETE FROM edges');
367
- const firstNodeDel = result.rollback_cypher.indexOf('DELETE FROM nodes');
368
- assert.ok(firstEdgeDel !== -1 && firstNodeDel !== -1, 'both DELETE positions must exist');
369
- assert.ok(firstEdgeDel < firstNodeDel, 'edges DELETEs must come BEFORE nodes DELETEs (FK safety)');
370
- } finally {
371
- // No cleanup -- final A1 sweep.
372
- }
373
- }
374
-
375
- async function scenario6MissingClassificationThrows() {
376
- const m = require('../core/rs-sqlite-mirror.cjs');
377
- const tmp = makeTmpRoom();
378
- try {
379
- const pair = makeCleanPair({ classification: undefined });
380
- const beforeN = await countNodes(tmp.roomDir);
381
- const beforeE = await countEdges(tmp.roomDir);
382
- let threw = null;
383
- try {
384
- await m.writeDiscovery(pair, { roomDir: tmp.roomDir });
385
- } catch (err) {
386
- threw = err;
387
- }
388
- assert.ok(threw, 'must throw on missing classification');
389
- assert.ok(threw instanceof TypeError, 'must throw TypeError, got ' + (threw && threw.name));
390
- assert.ok(/classification/.test(threw.message), 'error must mention classification, got: ' + threw.message);
391
- const afterN = await countNodes(tmp.roomDir);
392
- const afterE = await countEdges(tmp.roomDir);
393
- assert.equal(afterN, beforeN, 'no new nodes added on shape error');
394
- assert.equal(afterE, beforeE, 'no new edges added on shape error');
395
- } finally {
396
- tmp.cleanup();
397
- }
398
- }
399
-
400
- async function scenario7MissingThesisThrows() {
401
- const m = require('../core/rs-sqlite-mirror.cjs');
402
- const tmp = makeTmpRoom();
403
- try {
404
- const pair = makeCleanPair({ thesis: undefined });
405
- const beforeN = await countNodes(tmp.roomDir);
406
- let threw = null;
407
- try {
408
- await m.writeDiscovery(pair, { roomDir: tmp.roomDir });
409
- } catch (err) {
410
- threw = err;
411
- }
412
- assert.ok(threw, 'must throw on missing thesis');
413
- assert.ok(threw instanceof TypeError, 'must throw TypeError, got ' + (threw && threw.name));
414
- assert.ok(/thesis/.test(threw.message), 'error must mention thesis, got: ' + threw.message);
415
- const afterN = await countNodes(tmp.roomDir);
416
- assert.equal(afterN, beforeN, 'no new nodes added on shape error');
417
- } finally {
418
- tmp.cleanup();
419
- }
420
- }
421
-
422
- async function scenario8RoomDbUnreachableThrows() {
423
- // CANON: opts.roomDir = path that cannot be created (parent is a file,
424
- // not a directory). On Linux, creating /dev/null/anything fails because
425
- // /dev/null is not a directory.
426
- const m = require('../core/rs-sqlite-mirror.cjs');
427
- const unwritable = path.join('/dev/null', 'mos-89-3-02-impossible-' + crypto.randomUUID());
428
- const pair = makeCleanPair();
429
- let threw = null;
430
- try {
431
- await m.writeDiscovery(pair, { roomDir: unwritable });
432
- } catch (err) {
433
- threw = err;
434
- }
435
- assert.ok(threw, 'must throw on room.db unreachable');
436
- assert.equal(threw.name, 'SQLiteUnreachableError', 'must throw SQLiteUnreachableError, got ' + (threw && threw.name));
437
- // Must NOT be ExternalEgressViolation -- this is a tier-dispatch signal.
438
- assert.notEqual(threw.name, 'ExternalEgressViolation', 'must NOT confuse with ExternalEgressViolation');
439
- assert.ok(threw.meta, 'SQLiteUnreachableError must carry meta');
440
- }
441
-
442
- async function scenario9AdvForbiddenInThesis() {
443
- const m = require('../core/rs-sqlite-mirror.cjs');
444
- const tmp = makeTmpRoom();
445
- try {
446
- // FORBIDDEN_PATTERNS[3] matches /\bmeeting with\b/i.
447
- const pair = makeCleanPair({
448
- thesis: 'By applying X to Y, achieve Z because mechanism. Decided in meeting with Genentech.',
449
- });
450
- const beforeN = await countNodes(tmp.roomDir);
451
- let threw = null;
452
- try {
453
- await m.writeDiscovery(pair, { roomDir: tmp.roomDir });
454
- } catch (err) {
455
- threw = err;
456
- }
457
- assert.ok(threw, 'must throw on forbidden in thesis');
458
- assert.equal(threw.name, 'ExternalEgressViolation', 'must throw ExternalEgressViolation, got ' + (threw && threw.name));
459
- assert.equal(threw.meta.surface, 'rs-sqlite-mirror', 'meta.surface must be rs-sqlite-mirror');
460
- assert.ok(threw.meta.matched_pattern, 'meta.matched_pattern must be present');
461
- const afterN = await countNodes(tmp.roomDir);
462
- assert.equal(afterN, beforeN, 'no rows added (audit fires before SQLite write)');
463
- } finally {
464
- tmp.cleanup();
465
- }
466
- }
467
-
468
- async function scenario10AdvForbiddenInBridgeConcept() {
469
- const m = require('../core/rs-sqlite-mirror.cjs');
470
- const tmp = makeTmpRoom();
471
- try {
472
- // FORBIDDEN_PATTERNS[2] matches /\b(Lawrence|Jonathan|...)\s+(said|...)\b/i.
473
- const pair = makeCleanPair({
474
- bridge_concept: 'Lawrence said this is a cross-domain isomorphism',
475
- });
476
- const beforeN = await countNodes(tmp.roomDir);
477
- let threw = null;
478
- try {
479
- await m.writeDiscovery(pair, { roomDir: tmp.roomDir });
480
- } catch (err) {
481
- threw = err;
482
- }
483
- assert.ok(threw, 'must throw on forbidden in bridge_concept');
484
- assert.equal(threw.name, 'ExternalEgressViolation', 'must throw ExternalEgressViolation, got ' + (threw && threw.name));
485
- assert.equal(threw.meta.surface, 'rs-sqlite-mirror');
486
- const afterN = await countNodes(tmp.roomDir);
487
- assert.equal(afterN, beforeN, 'no rows added on adversarial input');
488
- } finally {
489
- tmp.cleanup();
490
- }
491
- }
492
-
493
- async function scenario11AdvForbiddenInQueryConcept() {
494
- const m = require('../core/rs-sqlite-mirror.cjs');
495
- const tmp = makeTmpRoom();
496
- try {
497
- // FORBIDDEN_PATTERNS[3] matches /\bmeeting with\b/i.
498
- const pair = makeCleanPair({
499
- query_concept: 'shared during meeting with the team',
500
- });
501
- const beforeN = await countNodes(tmp.roomDir);
502
- let threw = null;
503
- try {
504
- await m.writeDiscovery(pair, { roomDir: tmp.roomDir });
505
- } catch (err) {
506
- threw = err;
507
- }
508
- assert.ok(threw, 'must throw on forbidden in query_concept');
509
- assert.equal(threw.name, 'ExternalEgressViolation', 'must throw ExternalEgressViolation, got ' + (threw && threw.name));
510
- assert.equal(threw.meta.surface, 'rs-sqlite-mirror');
511
- const afterN = await countNodes(tmp.roomDir);
512
- assert.equal(afterN, beforeN, 'no rows added on adversarial input');
513
- } finally {
514
- tmp.cleanup();
515
- }
516
- }
517
-
518
- async function scenario12AdvForbiddenSmuggledViaExpertsInstitution() {
519
- // CANON PART 8 strongest smuggling vector: forbidden bytes inside
520
- // opts.context.experts[0].institution. The audit covers JSON.stringify
521
- // of the entire SQL params object, including UNWIND $experts arrays.
522
- const m = require('../core/rs-sqlite-mirror.cjs');
523
- const tmp = makeTmpRoom();
524
- try {
525
- const pair = makeCleanPair();
526
- const ctx = {
527
- papers: [],
528
- experts: [{
529
- name: 'Smith, Jane',
530
- orcid: '0000-0001-2345-6789',
531
- // FORBIDDEN_PATTERNS[3] matches /\bmeeting with\b/i.
532
- institution: 'noted during meeting with X University',
533
- paper_count: 1,
534
- h_index_estimate: 1,
535
- public_email_or_null: null,
536
- }],
537
- room_id: 'test',
538
- domain: 'biotech',
539
- };
540
- const beforeN = await countNodes(tmp.roomDir);
541
- let threw = null;
542
- try {
543
- await m.writeDiscovery(pair, { roomDir: tmp.roomDir, context: ctx });
544
- } catch (err) {
545
- threw = err;
546
- }
547
- assert.ok(threw, 'must throw on forbidden in experts[].institution');
548
- assert.equal(threw.name, 'ExternalEgressViolation', 'must throw ExternalEgressViolation, got ' + (threw && threw.name));
549
- assert.equal(threw.meta.surface, 'rs-sqlite-mirror');
550
- const afterN = await countNodes(tmp.roomDir);
551
- assert.equal(afterN, beforeN, 'no rows added on adversarial UNWIND input');
552
- } finally {
553
- tmp.cleanup();
554
- }
555
- }
556
-
557
- // ---------- A1 end-of-suite sweep ----------
558
- //
559
- // SELECT every row from every tmp room.db; JSON.stringify the rows; scan
560
- // against FORBIDDEN_PATTERNS. Asserts ZERO hits across the FINAL state of
561
- // every database after all 12 scenarios.
562
-
563
- async function a1Sweep() {
564
- let hits = 0;
565
- for (const roomDir of tmpRooms) {
566
- if (!fs.existsSync(path.join(roomDir, '.mindrian', 'room.db'))) continue;
567
- let nodes, edges;
568
- try {
569
- nodes = await selectAllNodes(roomDir);
570
- edges = await selectAllEdges(roomDir);
571
- } catch (_e) {
572
- // Room may have been cleaned up; skip.
573
- continue;
574
- }
575
- const json = JSON.stringify({ nodes: nodes, edges: edges });
576
- for (const re of FORBIDDEN_PATTERNS) {
577
- if (re.test(json)) {
578
- hits += 1;
579
- process.stderr.write(
580
- ' A1 HIT roomDir=' + roomDir +
581
- ' pattern=' + re.source + '\n'
582
- );
583
- }
584
- }
585
- }
586
- return hits;
587
- }
588
-
589
- // ---------- Cleanup all tmp rooms ----------
590
-
591
- function cleanupAllTmpRooms() {
592
- for (const roomDir of tmpRooms) {
593
- try {
594
- fs.rmSync(roomDir, { recursive: true, force: true });
595
- } catch (_e) { /* best effort */ }
596
- }
597
- }
598
-
599
- // ---------- Main ----------
600
-
601
- (async function main() {
602
- process.stdout.write('=== 89.3-02 rs-sqlite-mirror suite (REPO_ROOT=' +
603
- REPO_ROOT + ') ===\n');
604
-
605
- await runScenario('1-happy-minimal', scenario1HappyPathMinimal);
606
- await runScenario('2-real-idempotency-INSERT-OR-REPLACE', scenario2RealIdempotencyViaInsertOrReplace);
607
- await runScenario('3-full-happy-with-context', scenario3FullHappyPathWithContext);
608
- await runScenario('4-all-five-edge-types', scenario4AllFiveEdgeTypesWritten);
609
- await runScenario('5-rollback-sql-captured', scenario5RollbackSqlCaptured);
610
- await runScenario('6-missing-classification-throws', scenario6MissingClassificationThrows);
611
- await runScenario('7-missing-thesis-throws', scenario7MissingThesisThrows);
612
- await runScenario('8-room-db-unreachable-throws', scenario8RoomDbUnreachableThrows);
613
- await runScenario('9-adv-CANON-PART-8-thesis', scenario9AdvForbiddenInThesis);
614
- await runScenario('10-adv-CANON-PART-8-bridge_concept', scenario10AdvForbiddenInBridgeConcept);
615
- await runScenario('11-adv-CANON-PART-8-query_concept', scenario11AdvForbiddenInQueryConcept);
616
- await runScenario('12-adv-CANON-PART-8-experts-institution-smuggling', scenario12AdvForbiddenSmuggledViaExpertsInstitution);
617
-
618
- const sweepHits = await a1Sweep();
619
- if (sweepHits > 0) {
620
- failed += 1;
621
- failures.push({
622
- name: 'A1-sweep',
623
- err: new Error('A1 sweep found ' + sweepHits + ' forbidden-pattern hits in room.db final state'),
624
- });
625
- process.stderr.write(' FAIL A1-sweep (' + sweepHits + ' hits)\n');
626
- } else {
627
- process.stdout.write(' ok A1-sweep (zero forbidden-pattern hits in room.db final state)\n');
628
- }
629
-
630
- cleanupAllTmpRooms();
631
-
632
- if (failed > 0) {
633
- process.stdout.write('=== 89.3-02 rs-sqlite-mirror suite: ' +
634
- passed + '/12 passed' +
635
- ' (' + failed + ' failed) ===\n');
636
- for (const f of failures) {
637
- process.stderr.write(' FAILURE: ' + f.name + ': ' +
638
- (f.err && f.err.message ? f.err.message : String(f.err)) + '\n');
639
- }
640
- process.exit(1);
641
- }
642
-
643
- process.stdout.write('=== 89.3-02 rs-sqlite-mirror suite: 12/12 passed ===\n');
644
- process.exit(0);
645
- })().catch(function (err) {
646
- cleanupAllTmpRooms();
647
- process.stderr.write('FATAL: ' + (err && err.stack ? err.stack : err) + '\n');
648
- process.exit(2);
649
- });