@inflexa-ai/harness 0.45.1 → 0.46.2

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 (790) hide show
  1. package/README.md +6 -3
  2. package/dist/agents/conversation-agent.d.ts +9 -3
  3. package/dist/agents/conversation-agent.js +34 -33
  4. package/dist/agents/report-session-agent.d.ts +15 -15
  5. package/dist/agents/report-session-agent.js +23 -15
  6. package/dist/agents/sandbox/index.d.ts +1 -1
  7. package/dist/agents/sandbox/index.js +1 -1
  8. package/dist/agents/sandbox/shared.d.ts +12 -14
  9. package/dist/agents/sandbox/shared.js +18 -12
  10. package/dist/agents/sandbox/types.d.ts +4 -4
  11. package/dist/agents/sandbox/validate-skills.d.ts +2 -2
  12. package/dist/agents/sandbox/validate-skills.js +3 -1
  13. package/dist/agents/sandbox-catalog.d.ts +2 -2
  14. package/dist/agents/sandbox-catalog.js +3 -3
  15. package/dist/agents/system-prompt.d.ts +2 -2
  16. package/dist/app/chat-turn-workflow.d.ts +114 -0
  17. package/dist/app/chat-turn-workflow.js +306 -0
  18. package/dist/app/chat-turn.d.ts +85 -57
  19. package/dist/app/chat-turn.js +123 -100
  20. package/dist/app/data-profile-orientation.js +10 -8
  21. package/dist/app/data-profile-view.d.ts +4 -4
  22. package/dist/app/data-profile-view.js +9 -8
  23. package/dist/app/in-process-turn.d.ts +42 -0
  24. package/dist/app/in-process-turn.js +139 -0
  25. package/dist/app/message-assembly.d.ts +10 -4
  26. package/dist/app/message-assembly.js +13 -8
  27. package/dist/app/report-session-runtime.d.ts +4 -4
  28. package/dist/app/report-session-runtime.js +36 -21
  29. package/dist/app/spawn-report-session.d.ts +33 -28
  30. package/dist/app/spawn-report-session.js +25 -40
  31. package/dist/app/synthesize-run.d.ts +22 -16
  32. package/dist/app/synthesize-run.js +41 -35
  33. package/dist/app/work.d.ts +96 -0
  34. package/dist/app/work.js +147 -0
  35. package/dist/auth/local-auth-context.d.ts +1 -3
  36. package/dist/auth/local-auth-context.js +1 -3
  37. package/dist/auth/local-run-authorizer.d.ts +1 -1
  38. package/dist/auth/local-run-authorizer.js +5 -3
  39. package/dist/auth/types.d.ts +26 -26
  40. package/dist/billing/cached-resolver.d.ts +4 -4
  41. package/dist/billing/run-charge.d.ts +5 -8
  42. package/dist/billing/run-charge.js +2 -2
  43. package/dist/billing/usage-recorder.d.ts +9 -9
  44. package/dist/citations/aggregate.js +1 -1
  45. package/dist/citations/clients/arxiv.d.ts +2 -2
  46. package/dist/citations/clients/arxiv.js +12 -4
  47. package/dist/citations/clients/common.js +4 -2
  48. package/dist/citations/clients/crossref.d.ts +2 -2
  49. package/dist/citations/clients/crossref.js +37 -37
  50. package/dist/citations/clients/doi-registry.js +15 -16
  51. package/dist/citations/clients/pubmed.d.ts +2 -2
  52. package/dist/citations/clients/pubmed.js +20 -13
  53. package/dist/citations/clients/semantic-scholar.d.ts +2 -2
  54. package/dist/citations/clients/semantic-scholar.js +9 -9
  55. package/dist/citations/compare.js +2 -2
  56. package/dist/citations/match.d.ts +2 -2
  57. package/dist/citations/match.js +12 -7
  58. package/dist/citations/normalize.js +35 -26
  59. package/dist/citations/plan.js +6 -2
  60. package/dist/citations/resolve.d.ts +6 -6
  61. package/dist/citations/resolve.js +34 -25
  62. package/dist/citations/types.d.ts +77 -77
  63. package/dist/config/environment-stores.d.ts +6 -6
  64. package/dist/config/resource-limits.js +1 -3
  65. package/dist/contracts/analogy-report.d.ts +7 -7
  66. package/dist/contracts/analogy-report.js +2 -2
  67. package/dist/contracts/chat-events.d.ts +38 -24
  68. package/dist/contracts/chat-frame.d.ts +15 -5
  69. package/dist/contracts/chat-frame.js +64 -41
  70. package/dist/contracts/chat-parts.d.ts +130 -67
  71. package/dist/contracts/chat-parts.js +1 -0
  72. package/dist/contracts/content-url.js +16 -2
  73. package/dist/contracts/data-profile.d.ts +38 -38
  74. package/dist/contracts/index.d.ts +2 -2
  75. package/dist/contracts/index.js +1 -1
  76. package/dist/contracts/message.d.ts +6 -6
  77. package/dist/contracts/organ-system.d.ts +11 -11
  78. package/dist/contracts/part-registry.d.ts +5 -4
  79. package/dist/contracts/part-registry.js +5 -0
  80. package/dist/contracts/profile-vocabulary.d.ts +11 -10
  81. package/dist/contracts/profile-vocabulary.js +10 -3
  82. package/dist/contracts/report-blocks.d.ts +329 -329
  83. package/dist/contracts/report-reference.d.ts +105 -81
  84. package/dist/contracts/report-reference.js +30 -13
  85. package/dist/contracts/schemas/chat-events.d.ts +30 -16
  86. package/dist/contracts/schemas/chat-events.js +15 -6
  87. package/dist/contracts/schemas/chat-parts.d.ts +175 -102
  88. package/dist/contracts/schemas/chat-parts.js +33 -7
  89. package/dist/contracts/severity.d.ts +1 -1
  90. package/dist/contracts/structure-source.d.ts +3 -3
  91. package/dist/contracts/structure-source.js +6 -2
  92. package/dist/contracts/subagent-activity.d.ts +2 -2
  93. package/dist/contracts/subagent-activity.js +5 -3
  94. package/dist/contracts/usage.d.ts +2 -2
  95. package/dist/data/safety-panel-schema.d.ts +25 -25
  96. package/dist/data/safety-panel-schema.js +13 -4
  97. package/dist/execution/artifact-metadata.d.ts +23 -15
  98. package/dist/execution/artifact-metadata.js +33 -10
  99. package/dist/execution/artifact-record.d.ts +2 -2
  100. package/dist/execution/artifact-registration.d.ts +5 -5
  101. package/dist/execution/artifact-registry.d.ts +8 -8
  102. package/dist/execution/dbos-run-launcher.d.ts +24 -4
  103. package/dist/execution/dbos-run-launcher.js +58 -4
  104. package/dist/execution/dbos-workflow-purger.d.ts +5 -6
  105. package/dist/execution/dbos-workflow-purger.js +8 -7
  106. package/dist/execution/input-signature.d.ts +2 -2
  107. package/dist/execution/post-step-pipeline.d.ts +9 -9
  108. package/dist/execution/post-step-pipeline.js +1 -1
  109. package/dist/execution/post-step.js +2 -2
  110. package/dist/execution/reconcile-manifest.d.ts +4 -4
  111. package/dist/execution/reconcile-manifest.js +3 -2
  112. package/dist/execution/run-authorizer.d.ts +46 -37
  113. package/dist/execution/run-authorizer.js +8 -8
  114. package/dist/execution/run-canceler.d.ts +7 -7
  115. package/dist/execution/run-canceler.js +14 -7
  116. package/dist/execution/run-end-record.d.ts +2 -3
  117. package/dist/execution/run-event-parts.d.ts +0 -8
  118. package/dist/execution/run-event-parts.js +29 -24
  119. package/dist/execution/run-event-stream.d.ts +8 -8
  120. package/dist/execution/run-event-stream.js +3 -4
  121. package/dist/execution/run-launcher.d.ts +4 -4
  122. package/dist/execution/run-synthesis.d.ts +49 -48
  123. package/dist/execution/run-synthesis.js +96 -255
  124. package/dist/execution/staged-input.d.ts +2 -2
  125. package/dist/execution/step-summary.d.ts +6 -6
  126. package/dist/execution/step-summary.js +4 -8
  127. package/dist/execution/topo-sort.js +4 -3
  128. package/dist/execution/workflow-purger.d.ts +2 -2
  129. package/dist/index.d.ts +17 -20
  130. package/dist/index.js +25 -36
  131. package/dist/input-sanitization.js +9 -2
  132. package/dist/input-scan/clustering.d.ts +6 -6
  133. package/dist/input-scan/clustering.js +11 -5
  134. package/dist/input-scan/companions.js +3 -2
  135. package/dist/input-scan/detect-sets.d.ts +2 -2
  136. package/dist/input-scan/detect-sets.js +25 -21
  137. package/dist/input-scan/enrich.d.ts +6 -6
  138. package/dist/input-scan/enrich.js +29 -12
  139. package/dist/input-scan/formats.d.ts +2 -2
  140. package/dist/input-scan/formats.js +8 -2
  141. package/dist/input-scan/markers.d.ts +2 -2
  142. package/dist/input-scan/markers.js +14 -5
  143. package/dist/input-scan/menu.d.ts +10 -10
  144. package/dist/input-scan/menu.js +0 -0
  145. package/dist/input-scan/quarantine.d.ts +2 -2
  146. package/dist/input-scan/quarantine.js +23 -18
  147. package/dist/input-scan/readout-budget.d.ts +2 -2
  148. package/dist/input-scan/readout-budget.js +1 -1
  149. package/dist/input-scan/readout.d.ts +2 -2
  150. package/dist/input-scan/readout.js +47 -34
  151. package/dist/input-scan/scan.d.ts +2 -2
  152. package/dist/input-scan/scan.js +7 -5
  153. package/dist/input-scan/set-types.d.ts +28 -28
  154. package/dist/input-scan/shapes.d.ts +4 -4
  155. package/dist/input-scan/shapes.js +0 -0
  156. package/dist/input-scan/templates.d.ts +10 -10
  157. package/dist/input-scan/templates.js +30 -22
  158. package/dist/input-scan/tokens.d.ts +6 -4
  159. package/dist/input-scan/tokens.js +100 -38
  160. package/dist/input-scan/types.d.ts +22 -22
  161. package/dist/lib/async-utils.d.ts +3 -7
  162. package/dist/lib/async-utils.js +5 -9
  163. package/dist/lib/cache.js +1 -1
  164. package/dist/lib/chrome.d.ts +46 -6
  165. package/dist/lib/console-logger.js +2 -2
  166. package/dist/lib/db-result.d.ts +22 -6
  167. package/dist/lib/db-result.js +9 -13
  168. package/dist/lib/eyes.d.ts +4 -4
  169. package/dist/lib/eyes.js +1 -1
  170. package/dist/lib/fs-helpers.js +18 -6
  171. package/dist/lib/fs-result.d.ts +1 -0
  172. package/dist/lib/fs-result.js +5 -6
  173. package/dist/lib/hooks.d.ts +32 -7
  174. package/dist/lib/hooks.js +22 -3
  175. package/dist/lib/host-concurrency.js +3 -2
  176. package/dist/lib/logger.d.ts +2 -2
  177. package/dist/lib/logger.js +2 -1
  178. package/dist/lib/metrics.d.ts +1 -1
  179. package/dist/lib/null-proto.d.ts +6 -0
  180. package/dist/lib/null-proto.js +17 -0
  181. package/dist/lib/otel-spans.d.ts +1 -1
  182. package/dist/lib/otel-spans.js +9 -5
  183. package/dist/lib/otel.d.ts +4 -2
  184. package/dist/lib/otel.js +10 -2
  185. package/dist/lib/page-capture.d.ts +8 -8
  186. package/dist/lib/page-capture.js +9 -4
  187. package/dist/lib/parse-json.d.ts +5 -0
  188. package/dist/lib/parse-json.js +12 -0
  189. package/dist/lib/present.d.ts +12 -0
  190. package/dist/lib/present.js +39 -0
  191. package/dist/lib/rate-limit.d.ts +4 -4
  192. package/dist/lib/rate-limit.js +12 -13
  193. package/dist/lib/regulatory-corpus/fetch-fda-guidance.d.ts +4 -4
  194. package/dist/lib/regulatory-corpus/fetch-fda-guidance.js +4 -10
  195. package/dist/lib/regulatory-corpus/fetch-ich.d.ts +4 -4
  196. package/dist/lib/regulatory-corpus/fetch-ich.js +18 -14
  197. package/dist/lib/regulatory-corpus/normalize-whitespace.d.ts +6 -0
  198. package/dist/lib/regulatory-corpus/normalize-whitespace.js +41 -0
  199. package/dist/lib/regulatory-corpus.d.ts +10 -10
  200. package/dist/lib/regulatory-corpus.js +3 -1
  201. package/dist/lib/result.d.ts +10 -11
  202. package/dist/lib/result.js +15 -13
  203. package/dist/lib/storage.d.ts +2 -2
  204. package/dist/lib/test/async-iterable.d.ts +9 -0
  205. package/dist/lib/test/async-iterable.js +28 -0
  206. package/dist/lib/test/request-url.d.ts +5 -0
  207. package/dist/lib/test/request-url.js +7 -0
  208. package/dist/lib/test/result-assert.d.ts +12 -0
  209. package/dist/lib/test/result-assert.js +17 -0
  210. package/dist/lib/test/text-shapes.d.ts +24 -0
  211. package/dist/lib/test/text-shapes.js +63 -0
  212. package/dist/lib/text.d.ts +22 -0
  213. package/dist/lib/text.js +68 -0
  214. package/dist/lib/thrown.d.ts +18 -0
  215. package/dist/lib/thrown.js +30 -0
  216. package/dist/lib/unknown-array.d.ts +6 -0
  217. package/dist/lib/unknown-array.js +8 -0
  218. package/dist/lib/unknown-containers.d.ts +14 -0
  219. package/dist/lib/unknown-containers.js +17 -0
  220. package/dist/lib/unknown-text.d.ts +8 -0
  221. package/dist/lib/unknown-text.js +28 -0
  222. package/dist/lib/zod-issue-shape.d.ts +1 -1
  223. package/dist/lib/zod-issue-shape.js +31 -31
  224. package/dist/lib/zod-issues.d.ts +3 -3
  225. package/dist/lib/zod-issues.js +30 -17
  226. package/dist/literature/sources/arxiv.d.ts +6 -6
  227. package/dist/literature/sources/arxiv.js +92 -35
  228. package/dist/literature/sources/http.d.ts +2 -2
  229. package/dist/literature/sources/http.js +16 -15
  230. package/dist/literature/sources/pubmed.d.ts +16 -16
  231. package/dist/literature/sources/pubmed.js +96 -61
  232. package/dist/literature/sources/semantic-scholar.d.ts +8 -8
  233. package/dist/literature/sources/semantic-scholar.js +22 -13
  234. package/dist/loop/accounting.d.ts +63 -0
  235. package/dist/loop/accounting.js +141 -0
  236. package/dist/loop/call-policy.d.ts +73 -0
  237. package/dist/loop/call-policy.js +109 -0
  238. package/dist/loop/chat-stream.d.ts +62 -0
  239. package/dist/loop/chat-stream.js +237 -0
  240. package/dist/loop/compaction.d.ts +9 -9
  241. package/dist/loop/compaction.js +1 -1
  242. package/dist/loop/metrics.d.ts +12 -15
  243. package/dist/loop/metrics.js +14 -26
  244. package/dist/loop/run-loop.d.ts +233 -0
  245. package/dist/loop/run-loop.js +770 -0
  246. package/dist/loop/sub-agent.d.ts +61 -0
  247. package/dist/loop/sub-agent.js +160 -0
  248. package/dist/loop/tool-adapter.d.ts +98 -0
  249. package/dist/loop/tool-adapter.js +364 -0
  250. package/dist/loop/tool-detail.d.ts +1 -1
  251. package/dist/loop/tool-detail.js +6 -5
  252. package/dist/loop/tool-outcome.d.ts +1 -1
  253. package/dist/loop/tool-output.d.ts +4 -4
  254. package/dist/loop/tool-output.js +2 -2
  255. package/dist/loop/turn-credentials.d.ts +39 -0
  256. package/dist/loop/turn-credentials.js +90 -0
  257. package/dist/loop/types.d.ts +29 -38
  258. package/dist/loop/types.js +2 -7
  259. package/dist/memory/ai-sdk-message-storage.d.ts +5 -5
  260. package/dist/memory/ai-sdk-message-storage.js +13 -11
  261. package/dist/memory/card-builders.d.ts +14 -14
  262. package/dist/memory/card-builders.js +19 -15
  263. package/dist/memory/conversation-display-recorder.d.ts +22 -4
  264. package/dist/memory/conversation-display-recorder.js +43 -24
  265. package/dist/memory/conversation-display-replay.js +3 -2
  266. package/dist/memory/conversation-display-storage.d.ts +15 -7
  267. package/dist/memory/conversation-display-storage.js +141 -36
  268. package/dist/memory/conversation-view.d.ts +4 -4
  269. package/dist/memory/conversation-view.js +5 -4
  270. package/dist/memory/count-tokens.js +10 -8
  271. package/dist/memory/derive-thread-title.d.ts +0 -13
  272. package/dist/memory/derive-thread-title.js +2 -1
  273. package/dist/memory/message-backfill.d.ts +12 -5
  274. package/dist/memory/message-backfill.js +5 -3
  275. package/dist/memory/thread-history.d.ts +36 -21
  276. package/dist/memory/thread-history.js +78 -54
  277. package/dist/memory/thread-store.d.ts +26 -17
  278. package/dist/memory/thread-store.js +15 -9
  279. package/dist/memory/tool-call-integrity.d.ts +2 -2
  280. package/dist/memory/tool-call-integrity.js +4 -3
  281. package/dist/memory/working-memory.d.ts +16 -12
  282. package/dist/memory/working-memory.js +72 -61
  283. package/dist/prompts/briefing.d.ts +12 -12
  284. package/dist/prompts/briefing.js +1 -1
  285. package/dist/prompts/synthesis-agent.d.ts +1 -1
  286. package/dist/prompts/synthesis-agent.js +6 -14
  287. package/dist/provenance/collector.d.ts +6 -6
  288. package/dist/provenance/collector.js +15 -8
  289. package/dist/provenance/exec-frame.d.ts +2 -2
  290. package/dist/provenance/exec-frame.js +6 -1
  291. package/dist/provenance/seam.d.ts +1 -4
  292. package/dist/provenance/types.d.ts +6 -6
  293. package/dist/providers/ai-sdk.d.ts +113 -62
  294. package/dist/providers/ai-sdk.js +283 -518
  295. package/dist/providers/embedding.d.ts +2 -2
  296. package/dist/providers/embedding.js +1 -1
  297. package/dist/providers/errors.d.ts +22 -2
  298. package/dist/providers/errors.js +98 -50
  299. package/dist/providers/prompt-cache.d.ts +8 -8
  300. package/dist/providers/prompt-cache.js +13 -11
  301. package/dist/providers/reasoning.d.ts +2 -2
  302. package/dist/providers/reasoning.js +2 -2
  303. package/dist/providers/request-headers.js +12 -3
  304. package/dist/providers/types.d.ts +55 -94
  305. package/dist/reference-data/catalog.d.ts +2 -15
  306. package/dist/reference-data/catalog.js +25 -8
  307. package/dist/reference-data/receipt.d.ts +2 -2
  308. package/dist/report-model/assert-rules.js +1 -1
  309. package/dist/report-model/authoring-grammar.d.ts +211 -233
  310. package/dist/report-model/block-walk.d.ts +10 -10
  311. package/dist/report-model/block-walk.js +2 -0
  312. package/dist/report-model/draft-finish.d.ts +8 -8
  313. package/dist/report-model/draft-finish.js +1 -1
  314. package/dist/report-model/draft-hash.js +8 -7
  315. package/dist/report-model/draft-operations.d.ts +22 -10
  316. package/dist/report-model/draft-operations.js +48 -30
  317. package/dist/report-model/draft-read.d.ts +19 -7
  318. package/dist/report-model/draft-read.js +16 -6
  319. package/dist/report-model/draft.d.ts +844 -2
  320. package/dist/report-model/draft.js +3 -1
  321. package/dist/report-model/fixture-resolver.js +39 -16
  322. package/dist/report-model/pin-snapshot.d.ts +2 -2
  323. package/dist/report-model/pin-snapshot.js +15 -15
  324. package/dist/report-model/production-resolver.d.ts +18 -18
  325. package/dist/report-model/production-resolver.js +50 -42
  326. package/dist/report-model/reference-resolver.d.ts +26 -10
  327. package/dist/report-model/reference-resolver.js +68 -5
  328. package/dist/report-model/reference-stamp.js +30 -38
  329. package/dist/report-model/structural-validation.js +12 -4
  330. package/dist/report-model/validate.d.ts +7 -7
  331. package/dist/report-model/validate.js +6 -6
  332. package/dist/report-render/assets.d.ts +2 -2
  333. package/dist/report-render/assets.js +27 -3
  334. package/dist/report-render/chart-export.d.ts +10 -2
  335. package/dist/report-render/chart-export.js +37 -11
  336. package/dist/report-render/chart-presets.d.ts +8 -8
  337. package/dist/report-render/chart-presets.js +3 -3
  338. package/dist/report-render/chart-renderers.d.ts +23 -16
  339. package/dist/report-render/chart-renderers.js +74 -53
  340. package/dist/report-render/chart-toolbox.d.ts +2 -2
  341. package/dist/report-render/chart-toolbox.js +7 -6
  342. package/dist/report-render/chart.d.ts +15 -16
  343. package/dist/report-render/chart.js +369 -252
  344. package/dist/report-render/design.d.ts +36 -297
  345. package/dist/report-render/design.js +0 -12
  346. package/dist/report-render/figures/common.d.ts +12 -12
  347. package/dist/report-render/figures/common.js +42 -31
  348. package/dist/report-render/figures/dendrogram.d.ts +3 -3
  349. package/dist/report-render/figures/dendrogram.js +10 -10
  350. package/dist/report-render/figures/dense.js +15 -8
  351. package/dist/report-render/figures/dotplot.js +46 -33
  352. package/dist/report-render/figures/embedding.js +52 -43
  353. package/dist/report-render/figures/equal-units.d.ts +10 -10
  354. package/dist/report-render/figures/equal-units.js +27 -27
  355. package/dist/report-render/figures/forest.js +9 -7
  356. package/dist/report-render/figures/gsea.js +21 -11
  357. package/dist/report-render/figures/heatmap.js +13 -9
  358. package/dist/report-render/figures/index.d.ts +10 -10
  359. package/dist/report-render/figures/index.js +4 -2
  360. package/dist/report-render/figures/km.js +10 -9
  361. package/dist/report-render/figures/label-room.d.ts +12 -12
  362. package/dist/report-render/figures/label-room.js +7 -2
  363. package/dist/report-render/figures/locuszoom.d.ts +2 -2
  364. package/dist/report-render/figures/locuszoom.js +59 -31
  365. package/dist/report-render/figures/lollipop.js +3 -2
  366. package/dist/report-render/figures/ma.js +8 -4
  367. package/dist/report-render/figures/manhattan.d.ts +1 -2
  368. package/dist/report-render/figures/manhattan.js +52 -34
  369. package/dist/report-render/figures/oncoprint.js +4 -5
  370. package/dist/report-render/figures/pca.js +25 -11
  371. package/dist/report-render/figures/qq.js +20 -9
  372. package/dist/report-render/figures/roc.js +1 -1
  373. package/dist/report-render/figures/sankey.d.ts +2 -2
  374. package/dist/report-render/figures/sankey.js +11 -10
  375. package/dist/report-render/figures/upset.d.ts +6 -6
  376. package/dist/report-render/figures/upset.js +7 -4
  377. package/dist/report-render/figures/volcano.js +12 -10
  378. package/dist/report-render/hybrid-svg.d.ts +4 -4
  379. package/dist/report-render/hybrid-svg.js +7 -5
  380. package/dist/report-render/number-format.d.ts +4 -4
  381. package/dist/report-render/number-format.js +62 -27
  382. package/dist/report-render/page.js +2 -1
  383. package/dist/report-render/provenance-data.d.ts +2 -2
  384. package/dist/report-render/references.d.ts +4 -4
  385. package/dist/report-render/render.d.ts +2 -2
  386. package/dist/report-render/render.js +10 -11
  387. package/dist/report-render/script-json.js +1 -1
  388. package/dist/report-render/table-data.d.ts +6 -6
  389. package/dist/report-render/test/options.d.ts +49 -0
  390. package/dist/report-render/test/options.js +143 -0
  391. package/dist/report-render/test/page-function.d.ts +19 -0
  392. package/dist/report-render/test/page-function.js +33 -0
  393. package/dist/report-render/types.d.ts +10 -10
  394. package/dist/report-render/value-bridge.d.ts +4 -4
  395. package/dist/report-render/value-bridge.js +27 -14
  396. package/dist/report-render/views/chart-view.d.ts +2 -2
  397. package/dist/report-render/views/chart-view.js +2 -2
  398. package/dist/report-render/views/lineage.d.ts +6 -6
  399. package/dist/report-render/views/lineage.js +2 -0
  400. package/dist/report-render/views/page-view.d.ts +2 -2
  401. package/dist/report-render/views/page-view.js +1 -0
  402. package/dist/report-render/views/prose.js +25 -8
  403. package/dist/report-render/views/references-view.js +12 -1
  404. package/dist/report-render/views/values.js +1 -1
  405. package/dist/runtime/assemble.d.ts +53 -26
  406. package/dist/runtime/assemble.js +103 -56
  407. package/dist/runtime/boot.d.ts +8 -7
  408. package/dist/runtime/boot.js +1 -1
  409. package/dist/runtime/connection-budget.d.ts +6 -6
  410. package/dist/runtime/connection-budget.js +1 -1
  411. package/dist/runtime/dbos.d.ts +29 -19
  412. package/dist/runtime/dbos.js +35 -20
  413. package/dist/runtime/result-serialization.js +18 -5
  414. package/dist/runtime/shutdown.d.ts +2 -2
  415. package/dist/sandbox/client.d.ts +7 -3
  416. package/dist/sandbox/cpu-files.d.ts +2 -2
  417. package/dist/sandbox/cpu-files.js +21 -4
  418. package/dist/sandbox/create-sandbox.d.ts +7 -8
  419. package/dist/sandbox/create-sandbox.js +6 -12
  420. package/dist/sandbox/docker-client.d.ts +48 -3
  421. package/dist/sandbox/docker-client.js +10 -6
  422. package/dist/sandbox/estimate-data-profile-resources.js +2 -7
  423. package/dist/sandbox/exec-outcome.d.ts +2 -2
  424. package/dist/sandbox/exec-outcome.js +1 -1
  425. package/dist/sandbox/exec.d.ts +10 -6
  426. package/dist/sandbox/exec.js +27 -12
  427. package/dist/sandbox/execution-id.js +14 -6
  428. package/dist/sandbox/farm.d.ts +2 -2
  429. package/dist/sandbox/farm.js +22 -27
  430. package/dist/sandbox/identity.d.ts +7 -0
  431. package/dist/sandbox/identity.js +14 -3
  432. package/dist/sandbox/image-packages.js +15 -27
  433. package/dist/sandbox/k8s-client.d.ts +35 -8
  434. package/dist/sandbox/k8s-client.js +6 -5
  435. package/dist/sandbox/labels.js +1 -0
  436. package/dist/sandbox/liveness.js +3 -1
  437. package/dist/sandbox/mount-plan.d.ts +10 -10
  438. package/dist/sandbox/mount-plan.js +13 -14
  439. package/dist/sandbox/notification-sweep.d.ts +4 -4
  440. package/dist/sandbox/notification-sweep.js +4 -7
  441. package/dist/sandbox/package-identity.d.ts +6 -13
  442. package/dist/sandbox/package-identity.js +46 -28
  443. package/dist/sandbox/reaper.d.ts +10 -10
  444. package/dist/sandbox/reaper.js +4 -6
  445. package/dist/sandbox/sandbox-error.d.ts +2 -9
  446. package/dist/sandbox/sandbox-error.js +21 -8
  447. package/dist/sandbox/sandbox-step-translate.d.ts +8 -5
  448. package/dist/sandbox/sandbox-step-translate.js +22 -8
  449. package/dist/sandbox/step-sandbox.d.ts +47 -0
  450. package/dist/sandbox/step-sandbox.js +53 -0
  451. package/dist/sandbox/types.d.ts +18 -19
  452. package/dist/sandbox/types.js +1 -1
  453. package/dist/schemas/artifact-manifest.d.ts +4 -4
  454. package/dist/schemas/data-profile-schemas.d.ts +343 -298
  455. package/dist/schemas/file-metadata.js +2 -4
  456. package/dist/schemas/plan-schemas.d.ts +31 -31
  457. package/dist/schemas/run-synthesis.d.ts +95 -26
  458. package/dist/schemas/run-synthesis.js +3 -1
  459. package/dist/schemas/validate-plan.d.ts +4 -4
  460. package/dist/schemas/validate-plan.js +17 -5
  461. package/dist/schemas/workflow-state.d.ts +19 -19
  462. package/dist/schemas/workflow-state.js +2 -2
  463. package/dist/state/active-turns.d.ts +36 -0
  464. package/dist/state/active-turns.js +67 -0
  465. package/dist/state/analyses-metrics.d.ts +8 -8
  466. package/dist/state/analyses-metrics.js +4 -4
  467. package/dist/state/analyses.d.ts +0 -14
  468. package/dist/state/analyses.js +0 -32
  469. package/dist/state/artifacts.d.ts +32 -19
  470. package/dist/state/artifacts.js +28 -5
  471. package/dist/state/data-profile.d.ts +2 -2
  472. package/dist/state/db.d.ts +12 -2
  473. package/dist/state/db.js +5 -0
  474. package/dist/state/edit-intents.d.ts +4 -0
  475. package/dist/state/edit-intents.js +71 -0
  476. package/dist/state/index.d.ts +4 -4
  477. package/dist/state/index.js +2 -2
  478. package/dist/state/init.d.ts +2 -1
  479. package/dist/state/init.js +5 -2
  480. package/dist/state/migrations/20260927120000_baseline.js +3 -1
  481. package/dist/state/migrations/20261026120000_add_the_edit_intents.d.ts +7 -0
  482. package/dist/state/migrations/20261026120000_add_the_edit_intents.js +21 -0
  483. package/dist/state/migrations/20261027120000_record_the_applied_memory_edits.d.ts +7 -0
  484. package/dist/state/migrations/20261027120000_record_the_applied_memory_edits.js +16 -0
  485. package/dist/state/migrations/20261027120100_store_the_authoring_results.d.ts +8 -0
  486. package/dist/state/migrations/20261027120100_store_the_authoring_results.js +20 -0
  487. package/dist/state/migrations/20261027120200_key_the_groups_of_a_turn.d.ts +7 -0
  488. package/dist/state/migrations/20261027120200_key_the_groups_of_a_turn.js +12 -0
  489. package/dist/state/migrations/20261027120300_mark_the_active_turn_of_a_thread.d.ts +7 -0
  490. package/dist/state/migrations/20261027120300_mark_the_active_turn_of_a_thread.js +11 -0
  491. package/dist/state/migrations/20261028120000_record_the_paused_work.d.ts +7 -0
  492. package/dist/state/migrations/20261028120000_record_the_paused_work.js +25 -0
  493. package/dist/state/migrations/20261028120100_end_the_suspended_runs.d.ts +8 -0
  494. package/dist/state/migrations/20261028120100_end_the_suspended_runs.js +13 -0
  495. package/dist/state/migrations/20261029120000_reference_the_run_mandate.d.ts +7 -0
  496. package/dist/state/migrations/20261029120000_reference_the_run_mandate.js +23 -0
  497. package/dist/state/migrations/20261029120100_record_the_run_session_of_a_pause.d.ts +7 -0
  498. package/dist/state/migrations/20261029120100_record_the_run_session_of_a_pause.js +11 -0
  499. package/dist/state/migrations/index.js +18 -0
  500. package/dist/state/paused-work.d.ts +52 -0
  501. package/dist/state/paused-work.js +105 -0
  502. package/dist/state/plans.d.ts +27 -8
  503. package/dist/state/plans.js +14 -11
  504. package/dist/state/purge-analysis.d.ts +6 -6
  505. package/dist/state/purge-analysis.js +10 -2
  506. package/dist/state/report-session-state.d.ts +43 -18
  507. package/dist/state/report-session-state.js +43 -4
  508. package/dist/state/report-versions.d.ts +16 -11
  509. package/dist/state/report-versions.js +5 -3
  510. package/dist/state/runs.d.ts +30 -19
  511. package/dist/state/runs.js +43 -51
  512. package/dist/state/schema.d.ts +18 -21
  513. package/dist/state/schema.js +4 -5
  514. package/dist/state/snapshot-parse.d.ts +2 -2
  515. package/dist/state/snapshot-parse.js +14 -8
  516. package/dist/state/step-executions.d.ts +20 -8
  517. package/dist/state/step-executions.js +6 -4
  518. package/dist/state/tool-outputs.d.ts +2 -2
  519. package/dist/state/tool-outputs.js +2 -1
  520. package/dist/state/vector-store.d.ts +16 -16
  521. package/dist/state/vector-store.js +11 -7
  522. package/dist/tasks/data-profile-absorb.d.ts +3 -3
  523. package/dist/tasks/data-profile-absorb.js +21 -16
  524. package/dist/tasks/data-profile-activity.d.ts +5 -5
  525. package/dist/tasks/data-profile-activity.js +5 -5
  526. package/dist/tasks/data-profile-index.d.ts +4 -4
  527. package/dist/tasks/data-profile-index.js +32 -17
  528. package/dist/tasks/data-profile-resolve.d.ts +8 -8
  529. package/dist/tasks/data-profile-resolve.js +88 -62
  530. package/dist/tasks/data-profile.d.ts +40 -31
  531. package/dist/tasks/data-profile.js +138 -95
  532. package/dist/tasks/extract-values.d.ts +26 -79
  533. package/dist/tasks/extract-values.js +48 -108
  534. package/dist/tasks/refresh-regulatory-corpus.d.ts +4 -20
  535. package/dist/tasks/refresh-regulatory-corpus.js +12 -8
  536. package/dist/tasks/regulatory-corpus-boot-refresh.d.ts +2 -2
  537. package/dist/tasks/regulatory-corpus-boot-refresh.js +12 -10
  538. package/dist/testing.d.ts +62 -0
  539. package/dist/testing.js +101 -0
  540. package/dist/tools/ad-hoc-router.d.ts +9 -9
  541. package/dist/tools/ad-hoc-router.js +65 -52
  542. package/dist/tools/analysis-invocation.d.ts +7 -0
  543. package/dist/tools/analysis-invocation.js +29 -5
  544. package/dist/tools/approval/contract.d.ts +8 -52
  545. package/dist/tools/approval/contract.js +7 -36
  546. package/dist/tools/approval/gateway.d.ts +27 -28
  547. package/dist/tools/approval/gateway.js +33 -130
  548. package/dist/tools/approval/queries.d.ts +6 -11
  549. package/dist/tools/approval/queries.js +43 -29
  550. package/dist/tools/approval/uuidv7.js +2 -2
  551. package/dist/tools/bio/chembl.d.ts +3 -3
  552. package/dist/tools/bio/chembl.js +10 -0
  553. package/dist/tools/bio/comptox.d.ts +25 -8
  554. package/dist/tools/bio/comptox.js +4 -2
  555. package/dist/tools/bio/drug-gene-interactions.d.ts +27 -17
  556. package/dist/tools/bio/drug-gene-interactions.js +11 -8
  557. package/dist/tools/bio/gene-disease-evidence.d.ts +61 -15
  558. package/dist/tools/bio/gene-disease-evidence.js +10 -6
  559. package/dist/tools/bio/gene-preclinical-profile.d.ts +11 -11
  560. package/dist/tools/bio/keys.d.ts +2 -2
  561. package/dist/tools/bio/keys.js +3 -3
  562. package/dist/tools/bio/lookup-annotation.d.ts +5 -5
  563. package/dist/tools/bio/lookup-annotation.js +3 -0
  564. package/dist/tools/bio/opentargets.d.ts +1 -1
  565. package/dist/tools/bio/opentargets.js +6 -0
  566. package/dist/tools/bio/pubchem.d.ts +2 -2
  567. package/dist/tools/bio/pubchem.js +6 -0
  568. package/dist/tools/bio/pubmed.d.ts +26 -16
  569. package/dist/tools/bio/pubmed.js +9 -3
  570. package/dist/tools/bio/search-clinical-trials.d.ts +4 -4
  571. package/dist/tools/bio/search-clinical-trials.js +5 -1
  572. package/dist/tools/bio/search-faers.d.ts +2 -2
  573. package/dist/tools/bio/search-faers.js +1 -1
  574. package/dist/tools/bio/search-gene.d.ts +2 -2
  575. package/dist/tools/bio/search-gene.js +1 -0
  576. package/dist/tools/bio/search-geo-datasets.d.ts +4 -4
  577. package/dist/tools/bio/search-geo-datasets.js +5 -5
  578. package/dist/tools/bio/search-interactions.d.ts +1 -1
  579. package/dist/tools/bio/search-patents.d.ts +28 -22
  580. package/dist/tools/bio/search-patents.js +20 -17
  581. package/dist/tools/bio/search-protein.d.ts +2 -2
  582. package/dist/tools/bio/search-protein.js +1 -1
  583. package/dist/tools/bio/search-regulatory-approvals.d.ts +64 -18
  584. package/dist/tools/bio/search-regulatory-approvals.js +21 -16
  585. package/dist/tools/bio/target-safety.d.ts +8 -8
  586. package/dist/tools/bio/target-safety.js +11 -6
  587. package/dist/tools/capability-data.d.ts +9 -5
  588. package/dist/tools/capability-data.js +2 -1
  589. package/dist/tools/define-tool.d.ts +55 -46
  590. package/dist/tools/define-tool.js +39 -27
  591. package/dist/tools/display/normalize-echart-spec.d.ts +2 -2
  592. package/dist/tools/display/normalize-echart-spec.js +51 -27
  593. package/dist/tools/display/show-user.d.ts +2 -2
  594. package/dist/tools/display/show-user.js +1 -1
  595. package/dist/tools/execute-analysis.d.ts +19 -10
  596. package/dist/tools/execute-analysis.js +83 -62
  597. package/dist/tools/knowledge/check.d.ts +166 -44
  598. package/dist/tools/knowledge/check.js +5 -3
  599. package/dist/tools/knowledge/client.d.ts +31 -62
  600. package/dist/tools/knowledge/client.js +44 -27
  601. package/dist/tools/knowledge/environment.d.ts +6 -6
  602. package/dist/tools/knowledge/environment.js +18 -7
  603. package/dist/tools/knowledge/index.d.ts +2 -2
  604. package/dist/tools/knowledge/index.js +9 -9
  605. package/dist/tools/knowledge/local-slots.d.ts +4 -4
  606. package/dist/tools/knowledge/local-slots.js +11 -4
  607. package/dist/tools/knowledge/pin.d.ts +2 -2
  608. package/dist/tools/knowledge/recommend.d.ts +20 -45
  609. package/dist/tools/knowledge/recommend.js +27 -19
  610. package/dist/tools/knowledge/situation.d.ts +40 -40
  611. package/dist/tools/knowledge/situation.js +2 -9
  612. package/dist/tools/knowledge/skeleton.d.ts +4 -4
  613. package/dist/tools/knowledge/skeleton.js +10 -11
  614. package/dist/tools/knowledge/template.d.ts +20 -18
  615. package/dist/tools/knowledge/template.js +38 -32
  616. package/dist/tools/lib/alphafold-client.js +2 -1
  617. package/dist/tools/lib/amass-client.d.ts +28 -28
  618. package/dist/tools/lib/amass-client.js +20 -10
  619. package/dist/tools/lib/api-utils.d.ts +13 -3
  620. package/dist/tools/lib/api-utils.js +17 -3
  621. package/dist/tools/lib/bgee-client.d.ts +6 -6
  622. package/dist/tools/lib/bgee-client.js +16 -10
  623. package/dist/tools/lib/cbioportal-client.d.ts +4 -4
  624. package/dist/tools/lib/cbioportal-client.js +9 -8
  625. package/dist/tools/lib/chembl-client.d.ts +14 -14
  626. package/dist/tools/lib/chembl-client.js +11 -4
  627. package/dist/tools/lib/clinical-benchmarks-client.d.ts +4 -4
  628. package/dist/tools/lib/clinical-benchmarks-client.js +4 -7
  629. package/dist/tools/lib/clinical-trials-client.d.ts +18 -18
  630. package/dist/tools/lib/clinical-trials-client.js +10 -10
  631. package/dist/tools/lib/clinvar-client.d.ts +2 -2
  632. package/dist/tools/lib/clinvar-client.js +6 -6
  633. package/dist/tools/lib/ctx-ops.d.ts +23 -23
  634. package/dist/tools/lib/ctx-ops.js +13 -10
  635. package/dist/tools/lib/dgidb-client.d.ts +6 -6
  636. package/dist/tools/lib/dgidb-client.js +10 -12
  637. package/dist/tools/lib/disgenet-client.d.ts +4 -4
  638. package/dist/tools/lib/ema-client.d.ts +2 -2
  639. package/dist/tools/lib/ensembl-client.d.ts +4 -4
  640. package/dist/tools/lib/ensembl-client.js +5 -4
  641. package/dist/tools/lib/gwas-catalog-client.d.ts +4 -4
  642. package/dist/tools/lib/gwas-catalog-client.js +17 -17
  643. package/dist/tools/lib/html-text.d.ts +6 -0
  644. package/dist/tools/lib/html-text.js +9 -0
  645. package/dist/tools/lib/identifier-resolver.d.ts +4 -4
  646. package/dist/tools/lib/identifier-resolver.js +7 -3
  647. package/dist/tools/lib/impc-client.d.ts +8 -8
  648. package/dist/tools/lib/impc-client.js +46 -35
  649. package/dist/tools/lib/iuphar-client.d.ts +2 -2
  650. package/dist/tools/lib/iuphar-client.js +7 -16
  651. package/dist/tools/lib/monarch-client.d.ts +4 -4
  652. package/dist/tools/lib/openfda-client.d.ts +22 -22
  653. package/dist/tools/lib/openfda-client.js +23 -22
  654. package/dist/tools/lib/opentargets-client.d.ts +12 -12
  655. package/dist/tools/lib/pathway-client.d.ts +4 -4
  656. package/dist/tools/lib/pathway-client.js +15 -19
  657. package/dist/tools/lib/pharmgkb-client.d.ts +2 -2
  658. package/dist/tools/lib/pharmgkb-client.js +1 -1
  659. package/dist/tools/lib/protein-family-modality.d.ts +2 -2
  660. package/dist/tools/lib/protein-family-modality.js +0 -2
  661. package/dist/tools/lib/protein-family-normalize.js +7 -0
  662. package/dist/tools/lib/pubchem-client.d.ts +2 -2
  663. package/dist/tools/lib/pubchem-client.js +1 -0
  664. package/dist/tools/lib/pubchem-ops.d.ts +4 -4
  665. package/dist/tools/lib/pubchem-ops.js +8 -0
  666. package/dist/tools/lib/pubmed-client.d.ts +9 -9
  667. package/dist/tools/lib/pubmed-client.js +1 -1
  668. package/dist/tools/lib/string-client.d.ts +6 -6
  669. package/dist/tools/lib/uniprot-client.d.ts +8 -8
  670. package/dist/tools/lib/uniprot-client.js +5 -1
  671. package/dist/tools/memory/update-working-memory.d.ts +16 -13
  672. package/dist/tools/memory/update-working-memory.js +21 -3
  673. package/dist/tools/read-tool-output.js +8 -2
  674. package/dist/tools/registry.d.ts +2 -2
  675. package/dist/tools/report-authoring/authoring-tools.d.ts +54 -23
  676. package/dist/tools/report-authoring/authoring-tools.js +128 -62
  677. package/dist/tools/report-session/derive-table.d.ts +19 -59
  678. package/dist/tools/report-session/derive-table.js +120 -122
  679. package/dist/tools/report-session/examine-page.d.ts +6 -6
  680. package/dist/tools/report-session/examine-page.js +14 -12
  681. package/dist/tools/report-session/list-artifacts.d.ts +6 -6
  682. package/dist/tools/report-session/list-artifacts.js +5 -5
  683. package/dist/tools/report-session/page-faults.d.ts +6 -6
  684. package/dist/tools/report-session/page-faults.js +3 -1
  685. package/dist/tools/report-session/preview-report.d.ts +4 -3
  686. package/dist/tools/report-session/preview-report.js +26 -7
  687. package/dist/tools/report-session/record-version.d.ts +9 -4
  688. package/dist/tools/report-session/record-version.js +16 -9
  689. package/dist/tools/report-session/session-page-publisher.d.ts +6 -6
  690. package/dist/tools/research/generate-analogy-report.d.ts +14 -7
  691. package/dist/tools/research/generate-analogy-report.js +80 -76
  692. package/dist/tools/research/generate-plan.d.ts +16 -16
  693. package/dist/tools/research/generate-plan.js +410 -374
  694. package/dist/tools/research/guarded-address.js +3 -2
  695. package/dist/tools/research/inspect-data-profile.d.ts +27 -20
  696. package/dist/tools/research/inspect-data-profile.js +26 -25
  697. package/dist/tools/research/inspect-run.d.ts +54 -27
  698. package/dist/tools/research/inspect-run.js +50 -40
  699. package/dist/tools/research/literature-reviewer.d.ts +8 -7
  700. package/dist/tools/research/literature-reviewer.js +29 -28
  701. package/dist/tools/research/search-arxiv.d.ts +1 -1
  702. package/dist/tools/research/search-arxiv.js +1 -1
  703. package/dist/tools/research/search-github-repos.d.ts +10 -7
  704. package/dist/tools/research/search-github-repos.js +25 -22
  705. package/dist/tools/research/search-semantic-scholar.js +1 -1
  706. package/dist/tools/research/searxng-engine.d.ts +2 -2
  707. package/dist/tools/research/searxng-engine.js +6 -4
  708. package/dist/tools/research/web-fetch.d.ts +24 -21
  709. package/dist/tools/research/web-fetch.js +65 -74
  710. package/dist/tools/research/web-search.d.ts +26 -17
  711. package/dist/tools/research/web-search.js +26 -21
  712. package/dist/tools/sandbox/link-packages.d.ts +11 -7
  713. package/dist/tools/sandbox/link-packages.js +11 -8
  714. package/dist/tools/sandbox/list-available-packages.d.ts +17 -8
  715. package/dist/tools/sandbox/list-available-packages.js +31 -25
  716. package/dist/tools/sandbox/list-available-refs.d.ts +17 -14
  717. package/dist/tools/sandbox/list-available-refs.js +61 -36
  718. package/dist/tools/sandbox/report-blocker.d.ts +30 -37
  719. package/dist/tools/sandbox/report-blocker.js +23 -73
  720. package/dist/tools/sandbox/skills.d.ts +16 -12
  721. package/dist/tools/sandbox/skills.js +16 -12
  722. package/dist/tools/sandbox/submit-file-metadata.d.ts +12 -9
  723. package/dist/tools/sandbox/submit-file-metadata.js +18 -21
  724. package/dist/tools/start-report-session.d.ts +13 -5
  725. package/dist/tools/start-report-session.js +35 -8
  726. package/dist/tools/terminal-text.d.ts +5 -2
  727. package/dist/tools/terminal-text.js +35 -3
  728. package/dist/tools/workspace/decision-record.d.ts +4 -4
  729. package/dist/tools/workspace/decision-record.js +23 -13
  730. package/dist/tools/workspace/edit-file.d.ts +59 -20
  731. package/dist/tools/workspace/edit-file.js +81 -16
  732. package/dist/tools/workspace/execute-command.d.ts +15 -13
  733. package/dist/tools/workspace/execute-command.js +11 -9
  734. package/dist/tools/workspace/file-stat.d.ts +6 -3
  735. package/dist/tools/workspace/grep.d.ts +10 -7
  736. package/dist/tools/workspace/grep.js +9 -3
  737. package/dist/tools/workspace/list-files.d.ts +6 -3
  738. package/dist/tools/workspace/mutator.d.ts +28 -15
  739. package/dist/tools/workspace/mutator.js +107 -53
  740. package/dist/tools/workspace/read-file.d.ts +8 -5
  741. package/dist/tools/workspace/result-bounds.d.ts +5 -5
  742. package/dist/tools/workspace/result-bounds.js +4 -2
  743. package/dist/tools/workspace/run-exec.d.ts +2 -2
  744. package/dist/tools/workspace/run-exec.js +3 -3
  745. package/dist/tools/workspace/scan-inputs.d.ts +8 -5
  746. package/dist/tools/workspace/scan-inputs.js +17 -5
  747. package/dist/tools/workspace/show-file.d.ts +1 -1
  748. package/dist/tools/workspace/show-file.js +2 -1
  749. package/dist/tools/workspace/show-plan.d.ts +8 -5
  750. package/dist/tools/workspace/show-plan.js +9 -8
  751. package/dist/tools/workspace/workspace-search.d.ts +41 -13
  752. package/dist/tools/workspace/workspace-search.js +27 -14
  753. package/dist/tools/workspace/write-file.d.ts +9 -7
  754. package/dist/workflows/execute-analysis-scheduler.d.ts +9 -9
  755. package/dist/workflows/execute-analysis-scheduler.js +6 -3
  756. package/dist/workflows/execute-analysis.d.ts +46 -62
  757. package/dist/workflows/execute-analysis.js +137 -219
  758. package/dist/workflows/pause.d.ts +71 -0
  759. package/dist/workflows/pause.js +173 -0
  760. package/dist/workflows/sandbox-step.d.ts +38 -61
  761. package/dist/workflows/sandbox-step.js +99 -106
  762. package/dist/workflows/test/sql-writes.d.ts +21 -0
  763. package/dist/workflows/test/sql-writes.js +36 -0
  764. package/dist/workspace/filesystem.d.ts +6 -6
  765. package/dist/workspace/filesystem.js +10 -8
  766. package/dist/workspace/paths.d.ts +1 -1
  767. package/dist/workspace/paths.js +15 -4
  768. package/dist/workspace/search-config.d.ts +2 -2
  769. package/dist/workspace/search-config.js +1 -1
  770. package/package.json +21 -22
  771. package/dist/loop/call-guard.d.ts +0 -50
  772. package/dist/loop/call-guard.js +0 -90
  773. package/dist/loop/continue-agent.d.ts +0 -40
  774. package/dist/loop/continue-agent.js +0 -38
  775. package/dist/loop/genai-spans.d.ts +0 -47
  776. package/dist/loop/genai-spans.js +0 -134
  777. package/dist/loop/run-agent.d.ts +0 -245
  778. package/dist/loop/run-agent.js +0 -1124
  779. package/dist/loop/run-step.d.ts +0 -29
  780. package/dist/loop/run-step.js +0 -34
  781. package/dist/loop/run-to-terminal.d.ts +0 -66
  782. package/dist/loop/run-to-terminal.js +0 -93
  783. package/dist/loop/tool-mask.d.ts +0 -23
  784. package/dist/loop/tool-mask.js +0 -46
  785. package/dist/providers/streaming-chat.d.ts +0 -32
  786. package/dist/providers/streaming-chat.js +0 -91
  787. package/dist/tasks/derive-table-exec.d.ts +0 -54
  788. package/dist/tasks/derive-table-exec.js +0 -86
  789. package/dist/workflows/suspension.d.ts +0 -32
  790. package/dist/workflows/suspension.js +0 -38
@@ -1,9 +1,11 @@
1
- import { type LanguageModel } from "ai";
1
+ import { type LanguageModelUsage, type ProviderMetadata } from "ai";
2
+ import { type LanguageModelV4 } from "@ai-sdk/provider";
3
+ import { type RetryFunction } from "@ai-sdk/provider-utils";
2
4
  import { type AgentSession } from "../auth/types.js";
3
5
  import type { Logger } from "../lib/logger.js";
4
6
  import { type ProviderError, type SuspendOn } from "./errors.js";
5
7
  import { type ResolveRequestHeaders } from "./request-headers.js";
6
- import type { ChatProvider, FetchLike, ProviderCapabilities, ProviderOptions, ReasoningPolicy } from "./types.js";
8
+ import type { ChatProvider, ChatUsage, ModelRetry, ProviderCapabilities, ProviderOptions, ReasoningPolicy } from "./types.js";
7
9
  /**
8
10
  * The harness-owned retry envelope. The AI SDK's built-in retry exposes only a
9
11
  * count: its 2s initial delay and ×2 factor are fixed, it caps neither the
@@ -32,17 +34,17 @@ export declare const RETRY_MAX_DELAY_MS = 30000;
32
34
  */
33
35
  export declare const DEFAULT_MAX_OUTPUT_TOKENS = 64000;
34
36
  /** With no `suspendOn`, a provider uses {@link DEFAULT_SUSPEND_ON}. */
35
- export interface ProviderHostPolicy {
37
+ export type ProviderHostPolicy = {
36
38
  readonly resolveRequestHeaders?: ResolveRequestHeaders;
37
39
  readonly suspendOn?: SuspendOn;
38
- }
40
+ };
39
41
  /** The call facts that `providerOptionsFor` uses to build provider options. */
40
- export interface ProviderCall {
42
+ export type ProviderCall = {
41
43
  readonly session: AgentSession;
42
44
  readonly reasoning: ReasoningPolicy;
43
- }
44
- export interface AiSdkProviderDeps extends ProviderHostPolicy {
45
- readonly model: LanguageModel;
45
+ };
46
+ export type AiSdkProviderDeps = ProviderHostPolicy & {
47
+ readonly model: LanguageModelV4;
46
48
  readonly capabilities?: Partial<ProviderCapabilities>;
47
49
  readonly logger?: Logger;
48
50
  /**
@@ -56,47 +58,45 @@ export interface AiSdkProviderDeps extends ProviderHostPolicy {
56
58
  /** The retry limit of the harness envelope. Defaults to {@link RETRY_MAX_RETRIES}. */
57
59
  readonly maxRetries?: number;
58
60
  /**
59
- * The bound for each silent interval of a request attempt, in milliseconds.
60
- * The provider hands the value to the SDK as the bound for each gap between
61
- * two content chunks of a stream. The value also names itself in the error of
62
- * a stream that the bound stopped. When the field is absent, the provider
63
- * hands the SDK no bound.
61
+ * The bound for each silent interval of a request attempt, in milliseconds:
62
+ * the wait for the first content part, and each gap between two content
63
+ * parts. The value also names itself in the error of an attempt that the
64
+ * bound stopped. When the field is absent, the provider bounds nothing.
64
65
  */
65
66
  readonly requestTimeoutMs?: number;
66
- /** Fallback effort when a request sets none. Defaults to {@link DEFAULT_REASONING}. */
67
+ /** Fallback effort when a run sets none. Defaults to {@link DEFAULT_REASONING}. */
67
68
  readonly reasoning?: ReasoningPolicy;
68
69
  /**
69
- * Builds provider options once per call, before the retry envelope, so
70
+ * Builds provider options once per run, before the retry envelope, so
70
71
  * every attempt reuses the same options.
71
72
  */
72
73
  readonly providerOptionsFor?: (call: ProviderCall) => ProviderOptions | undefined;
73
- }
74
+ };
74
75
  /**
75
76
  * Connection + model configuration for one `ChatProvider`, discriminated by
76
77
  * wire protocol (`anthropic` | `openai` | `openai-compatible`). The `model` is the wire
77
- * model bound into the provider at construction: `ChatRequest` carries no model
78
- * field (see `./types.ts`), so a config value describes exactly one model over
79
- * one connection. An embedder running distinct models builds one provider per
80
- * model from configs that share the connection (same `baseURL`/`apiKey`) and
81
- * differ only in `model` — a single provider cannot be retargeted to another
82
- * model per request.
78
+ * model bound into the provider at construction, so a config value describes
79
+ * exactly one model over one connection. An embedder running distinct models
80
+ * builds one provider per model from configs that share the connection (same
81
+ * `baseURL`/`apiKey`) and differ only in `model`.
83
82
  */
84
83
  export type AiSdkProviderConfig = {
85
84
  readonly kind: "anthropic";
86
85
  readonly baseURL?: string;
87
86
  readonly apiKey: string;
88
87
  readonly model: string;
89
- readonly fetch?: FetchLike;
88
+ readonly fetch?: typeof fetch;
90
89
  readonly capabilities?: Partial<ProviderCapabilities>;
91
90
  /** Output-token ceiling per request. Defaults to {@link DEFAULT_MAX_OUTPUT_TOKENS}. */
92
91
  readonly maxOutputTokens?: number;
93
92
  /**
94
93
  * The bound for each silent interval of a request attempt, in
95
- * milliseconds. The value bounds the wait until the response starts, and
96
- * each gap between two content chunks of a stream, per attempt. A chunk
97
- * that carries no content, for example a keep-alive comment, does not
98
- * reset the gap bound. When the field is absent, the provider installs no
99
- * guard, and its behavior does not change.
94
+ * milliseconds. The value bounds the wait until the response starts, the
95
+ * wait for the first content part, and each gap between two content
96
+ * parts, per attempt. A chunk that carries no content, for example a
97
+ * keep-alive comment, does not reset the gap bound. When the field is
98
+ * absent, the provider installs no guard, and its behavior does not
99
+ * change.
100
100
  *
101
101
  * The harness lifts the transport floor of Bun: the guard adds
102
102
  * `timeout: false` to the fetch init, thus the idle cut of 300 seconds
@@ -111,7 +111,7 @@ export type AiSdkProviderConfig = {
111
111
  * keeps the default of 10.
112
112
  */
113
113
  readonly maxRetries?: number;
114
- /** Fallback effort when a request sets none. Defaults to {@link DEFAULT_REASONING}. */
114
+ /** Fallback effort when a run sets none. Defaults to {@link DEFAULT_REASONING}. */
115
115
  readonly reasoning?: ReasoningPolicy;
116
116
  /**
117
117
  * How the API handles a signed thinking block whose prefix changed.
@@ -123,7 +123,7 @@ export type AiSdkProviderConfig = {
123
123
  readonly baseURL?: string;
124
124
  readonly apiKey: string;
125
125
  readonly model: string;
126
- readonly fetch?: FetchLike;
126
+ readonly fetch?: typeof fetch;
127
127
  readonly capabilities?: Partial<ProviderCapabilities>;
128
128
  /**
129
129
  * Output-token ceiling per request. An unset value sends no ceiling, and
@@ -134,11 +134,12 @@ export type AiSdkProviderConfig = {
134
134
  readonly maxOutputTokens?: number;
135
135
  /**
136
136
  * The bound for each silent interval of a request attempt, in
137
- * milliseconds. The value bounds the wait until the response starts, and
138
- * each gap between two content chunks of a stream, per attempt. A chunk
139
- * that carries no content, for example a keep-alive comment, does not
140
- * reset the gap bound. When the field is absent, the provider installs no
141
- * guard, and its behavior does not change.
137
+ * milliseconds. The value bounds the wait until the response starts, the
138
+ * wait for the first content part, and each gap between two content
139
+ * parts, per attempt. A chunk that carries no content, for example a
140
+ * keep-alive comment, does not reset the gap bound. When the field is
141
+ * absent, the provider installs no guard, and its behavior does not
142
+ * change.
142
143
  *
143
144
  * The harness lifts the transport floor of Bun: the guard adds
144
145
  * `timeout: false` to the fetch init, thus the idle cut of 300 seconds
@@ -153,7 +154,7 @@ export type AiSdkProviderConfig = {
153
154
  * keeps the default of 10.
154
155
  */
155
156
  readonly maxRetries?: number;
156
- /** Fallback effort when a request sets none. Defaults to {@link DEFAULT_REASONING}. */
157
+ /** Fallback effort when a run sets none. Defaults to {@link DEFAULT_REASONING}. */
157
158
  readonly reasoning?: ReasoningPolicy;
158
159
  /**
159
160
  * NOTICE: this value is the retention directive of the Responses wire.
@@ -193,17 +194,25 @@ export type AiSdkProviderConfig = {
193
194
  readonly baseURL: string;
194
195
  readonly apiKey?: string;
195
196
  readonly model: string;
196
- readonly fetch?: FetchLike;
197
+ readonly fetch?: typeof fetch;
197
198
  readonly capabilities?: Partial<ProviderCapabilities>;
199
+ /**
200
+ * The endpoint takes a tool message whose content is a list of parts, for example a text part and an
201
+ * image part. The standard wire takes a string only, thus the package then sends a tool result as
202
+ * JSON text. Set the flag only for a backend that takes the parts. It also asserts `imageToolResults`,
203
+ * which `capabilities` can override.
204
+ */
205
+ readonly supportsMultiPartToolContent?: boolean;
198
206
  /** Output-token ceiling per request. Defaults to {@link DEFAULT_MAX_OUTPUT_TOKENS}. */
199
207
  readonly maxOutputTokens?: number;
200
208
  /**
201
209
  * The bound for each silent interval of a request attempt, in
202
- * milliseconds. The value bounds the wait until the response starts, and
203
- * each gap between two content chunks of a stream, per attempt. A chunk
204
- * that carries no content, for example a keep-alive comment, does not
205
- * reset the gap bound. When the field is absent, the provider installs no
206
- * guard, and its behavior does not change.
210
+ * milliseconds. The value bounds the wait until the response starts, the
211
+ * wait for the first content part, and each gap between two content
212
+ * parts, per attempt. A chunk that carries no content, for example a
213
+ * keep-alive comment, does not reset the gap bound. When the field is
214
+ * absent, the provider installs no guard, and its behavior does not
215
+ * change.
207
216
  *
208
217
  * The harness lifts the transport floor of Bun: the guard adds
209
218
  * `timeout: false` to the fetch init, thus the idle cut of 300 seconds
@@ -218,13 +227,13 @@ export type AiSdkProviderConfig = {
218
227
  * keeps the default of 10.
219
228
  */
220
229
  readonly maxRetries?: number;
221
- /** Fallback effort when a request sets none. Defaults to {@link DEFAULT_REASONING}. */
230
+ /** Fallback effort when a run sets none. Defaults to {@link DEFAULT_REASONING}. */
222
231
  readonly reasoning?: ReasoningPolicy;
223
232
  };
224
- export interface ConfiguredAiSdkProviderDeps extends ProviderHostPolicy {
233
+ export type ConfiguredAiSdkProviderDeps = ProviderHostPolicy & {
225
234
  readonly config: AiSdkProviderConfig;
226
235
  readonly logger?: Logger;
227
- }
236
+ };
228
237
  /**
229
238
  * Identifiers only, never a name or address. The run frame wins over the
230
239
  * thread so parallel steps of one run keep separate gateway cache accounts.
@@ -236,6 +245,31 @@ export declare function sessionKeyOf(session: Pick<AgentSession, "scope" | "runF
236
245
  * non-retryable 400.
237
246
  */
238
247
  export declare function sessionKeyDigestOf(session: Pick<AgentSession, "scope" | "runFrame">): string;
248
+ /**
249
+ * The model that answered after a server-side fallback hop, `""` when the hop is
250
+ * reported without one, and `undefined` when no hop happened.
251
+ *
252
+ * A model can refuse a request by category — a biology prompt is one such category —
253
+ * and the API then re-serves it on another model. It reports the hop TWICE: as a
254
+ * `fallback` content block inside the assistant turn, and on
255
+ * `providerMetadata.anthropic.iterations`. `@ai-sdk/anthropic` keeps only the second,
256
+ * because the AI SDK has no part for a model hop, and it drops the block from the
257
+ * content it returns (`anthropic-messages-language-model`, the `content_block_start`
258
+ * case). Thus the turn the harness holds is not the turn the API produced, and every
259
+ * signed thinking block of that turn is rejected from the next request on.
260
+ *
261
+ * The API holds the whole turn against the signature of each of its thinking blocks, so
262
+ * echoing that turn earns `thinking ... blocks in the latest assistant message cannot be
263
+ * modified`, which is a 400 that no retry can pass. A thinking block is optional on the
264
+ * way back, thus the loop records the reply of a hop with no thinking block, and the next
265
+ * request continues. The cost is the reasoning of this one turn and the cache write that
266
+ * its new prefix pays for.
267
+ *
268
+ * The response metadata of the package carries `message_start.message.model`, and that
269
+ * field keeps the REQUESTED model across a hop. The iteration names the model that
270
+ * answered, thus it wins for the usage record.
271
+ */
272
+ export declare function fallbackModelOf(metadata: ProviderMetadata | undefined): string | undefined;
239
273
  /**
240
274
  * The delay before the next retry attempt. A server-named `Retry-After` inside
241
275
  * the envelope is honored exactly — the server pointed at a precise time, so
@@ -252,9 +286,9 @@ export declare function computeRetryDelayMs(error: unknown, exponentialBackoffDe
252
286
  * this flag marks the rejection: it stays set when the hook call of the attempt
253
287
  * did not settle as a value.
254
288
  */
255
- export interface HookCall {
289
+ export type HookCall = {
256
290
  unsettled: boolean;
257
- }
291
+ };
258
292
  /** A refusal of the hook throws `HeadersRefused`. */
259
293
  export declare function headersForAttempt(hook: ResolveRequestHeaders | undefined, session: AgentSession, call: HookCall): Promise<Record<string, string>>;
260
294
  export declare function failureOf(e: unknown, workload: string, suspendOn: SuspendOn): ProviderError;
@@ -276,7 +310,26 @@ export declare function failureOf(e: unknown, workload: string, suspendOn: Suspe
276
310
  * timeout. Without this guard the envelope would loop an expiry that the caller
277
311
  * itself declared.
278
312
  */
279
- export declare function createRetry(signal: AbortSignal | undefined, logger: Logger, maxRetries: number, suspendOn: SuspendOn, hookCall: HookCall): import("@ai-sdk/provider-utils").RetryFunction;
313
+ export declare function createRetry(signal: AbortSignal | undefined, logger: Logger, maxRetries: number, suspendOn: SuspendOn, hookCall: HookCall, onRetry?: (retry: ModelRetry) => void): RetryFunction;
314
+ /**
315
+ * Map AI SDK token accounting onto the harness's neutral `ChatUsage`.
316
+ *
317
+ * The cache breakdown rides on the SDK's *vendor-neutral* `inputTokenDetails`,
318
+ * not in `providerMetadata` — both installed providers normalize into it:
319
+ * `@ai-sdk/anthropic` maps `cache_read_input_tokens` → `cacheReadTokens` and
320
+ * `cache_creation_input_tokens` → `cacheWriteTokens`, and
321
+ * `@ai-sdk/openai-compatible` maps `prompt_tokens_details.cached_tokens` →
322
+ * `cacheReadTokens` (it never reports a write — that family caches
323
+ * server-side, with no billed write step). Reading the neutral field is
324
+ * therefore both correct and vendor-agnostic.
325
+ *
326
+ * `inputTokens` is the total billed prefix, cache reads included.
327
+ *
328
+ * `reasoningTokens` rides the neutral `outputTokenDetails` beside the text
329
+ * count and is copied verbatim: providers disagree on whether reasoning tokens
330
+ * are already inside the output total, so the harness reconciles nothing.
331
+ */
332
+ export declare function toChatUsage(usage: LanguageModelUsage | undefined): ChatUsage | undefined;
280
333
  export declare function createAiSdkProvider(deps: AiSdkProviderDeps): ChatProvider;
281
334
  /**
282
335
  * Wrap a fetch so that the wait until the response starts does not exceed
@@ -287,28 +340,26 @@ export declare function createAiSdkProvider(deps: AiSdkProviderDeps): ChatProvid
287
340
  * signal through `AbortSignal.any`. Thus the caller signal keeps its normal
288
341
  * effect, and a caller abort stays a cancellation.
289
342
  *
290
- * The guard bounds the response start only. The SDK bounds each later gap of a
291
- * streamed body with its own `chunkMs` setting, thus no timer of the wrapper
292
- * survives the headers. Thus a stream with steady content does not trip the
293
- * guard, whatever its total length. One fetch call is one attempt, because the
294
- * SDK retries are off, thus the window is per attempt.
343
+ * The guard bounds the response start only. The retry envelope bounds each later
344
+ * gap of a streamed body, thus no timer of the wrapper survives the headers. One
345
+ * fetch call is one attempt, because the SDK retries are off, thus the window is
346
+ * per attempt.
295
347
  *
296
348
  * When the field is absent, `createConfiguredAiSdkProvider` installs no wrapper,
297
349
  * and the behavior stays byte-identical.
298
350
  */
299
- export declare function wrapFetchWithRequestTimeout(fetchImpl: FetchLike, requestTimeoutMs: number): FetchLike;
351
+ export declare function wrapFetchWithRequestTimeout(fetchImpl: typeof fetch, requestTimeoutMs: number): typeof fetch;
300
352
  export declare function hostPolicyOf(deps: ProviderHostPolicy): ProviderHostPolicy;
301
353
  /**
302
354
  * Realize an `AiSdkProviderConfig` into a `ChatProvider` bound to that config's
303
- * connection and model. The model is closed into the returned provider here (it
304
- * is never passed per `ChatRequest`), so N models require N provider
305
- * instances over one shared connection configuration — one instance serves the
306
- * single model it was built with.
355
+ * connection and model. The model is closed into the returned provider here, so
356
+ * N models require N provider instances over one shared connection
357
+ * configuration — one instance serves the single model it was built with.
307
358
  *
308
359
  * When the config sets `requestTimeoutMs`, the provider wraps the effective fetch
309
- * (`config.fetch ?? globalThis.fetch`) with the response-start guard, it hands
310
- * the value to the stream call as the SDK chunk bound, and it advertises the
311
- * value on the returned instance. When the field is absent, it installs no
312
- * wrapper, it hands the SDK no bound, and it advertises no value.
360
+ * (`config.fetch ?? globalThis.fetch`) with the response-start guard, the retry
361
+ * envelope bounds each later silent interval with the same value, and the
362
+ * provider advertises the value on the returned instance. When the field is
363
+ * absent, it installs no wrapper, it bounds nothing, and it advertises no value.
313
364
  */
314
365
  export declare function createConfiguredAiSdkProvider(deps: ConfiguredAiSdkProviderDeps): ChatProvider;