@inflexa-ai/harness 0.45.0 → 0.46.0

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 (802) hide show
  1. package/README.md +6 -3
  2. package/dist/agents/conversation-agent.d.ts +19 -3
  3. package/dist/agents/conversation-agent.js +49 -30
  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 +35 -16
  9. package/dist/agents/sandbox/shared.js +63 -24
  10. package/dist/agents/sandbox/translational-safety-agent.js +26 -0
  11. package/dist/agents/sandbox/types.d.ts +26 -3
  12. package/dist/agents/sandbox/validate-skills.d.ts +2 -2
  13. package/dist/agents/sandbox/validate-skills.js +3 -1
  14. package/dist/agents/sandbox-catalog.d.ts +16 -2
  15. package/dist/agents/sandbox-catalog.js +22 -3
  16. package/dist/agents/system-prompt.d.ts +2 -2
  17. package/dist/app/approve-plan.d.ts +5 -2
  18. package/dist/app/approve-plan.js +1 -1
  19. package/dist/app/chat-turn-workflow.d.ts +114 -0
  20. package/dist/app/chat-turn-workflow.js +307 -0
  21. package/dist/app/chat-turn.d.ts +85 -57
  22. package/dist/app/chat-turn.js +125 -99
  23. package/dist/app/data-profile-orientation.js +10 -8
  24. package/dist/app/data-profile-view.d.ts +4 -4
  25. package/dist/app/data-profile-view.js +9 -8
  26. package/dist/app/in-process-turn.d.ts +42 -0
  27. package/dist/app/in-process-turn.js +139 -0
  28. package/dist/app/message-assembly.d.ts +10 -4
  29. package/dist/app/message-assembly.js +13 -8
  30. package/dist/app/report-session-runtime.d.ts +4 -4
  31. package/dist/app/report-session-runtime.js +36 -21
  32. package/dist/app/spawn-report-session.d.ts +33 -28
  33. package/dist/app/spawn-report-session.js +25 -40
  34. package/dist/app/synthesize-run.d.ts +22 -16
  35. package/dist/app/synthesize-run.js +41 -35
  36. package/dist/app/work.d.ts +96 -0
  37. package/dist/app/work.js +147 -0
  38. package/dist/auth/local-auth-context.d.ts +1 -3
  39. package/dist/auth/local-auth-context.js +1 -3
  40. package/dist/auth/local-run-authorizer.d.ts +1 -1
  41. package/dist/auth/local-run-authorizer.js +5 -3
  42. package/dist/auth/types.d.ts +26 -26
  43. package/dist/billing/cached-resolver.d.ts +4 -4
  44. package/dist/billing/run-charge.d.ts +5 -8
  45. package/dist/billing/run-charge.js +2 -2
  46. package/dist/billing/usage-recorder.d.ts +9 -9
  47. package/dist/citations/aggregate.js +1 -1
  48. package/dist/citations/clients/arxiv.d.ts +2 -2
  49. package/dist/citations/clients/arxiv.js +12 -4
  50. package/dist/citations/clients/common.js +4 -2
  51. package/dist/citations/clients/crossref.d.ts +2 -2
  52. package/dist/citations/clients/crossref.js +37 -37
  53. package/dist/citations/clients/doi-registry.js +15 -16
  54. package/dist/citations/clients/pubmed.d.ts +2 -2
  55. package/dist/citations/clients/pubmed.js +20 -13
  56. package/dist/citations/clients/semantic-scholar.d.ts +2 -2
  57. package/dist/citations/clients/semantic-scholar.js +9 -9
  58. package/dist/citations/compare.js +2 -2
  59. package/dist/citations/match.d.ts +2 -2
  60. package/dist/citations/match.js +12 -7
  61. package/dist/citations/normalize.js +35 -26
  62. package/dist/citations/plan.js +6 -2
  63. package/dist/citations/resolve.d.ts +6 -6
  64. package/dist/citations/resolve.js +34 -25
  65. package/dist/citations/types.d.ts +77 -77
  66. package/dist/config/environment-stores.d.ts +10 -8
  67. package/dist/config/resource-limits.js +1 -3
  68. package/dist/contracts/analogy-report.d.ts +7 -7
  69. package/dist/contracts/analogy-report.js +2 -2
  70. package/dist/contracts/chat-events.d.ts +46 -22
  71. package/dist/contracts/chat-events.js +1 -1
  72. package/dist/contracts/chat-frame.d.ts +15 -5
  73. package/dist/contracts/chat-frame.js +67 -40
  74. package/dist/contracts/chat-parts.d.ts +130 -67
  75. package/dist/contracts/chat-parts.js +1 -0
  76. package/dist/contracts/content-url.js +16 -2
  77. package/dist/contracts/data-profile.d.ts +38 -38
  78. package/dist/contracts/index.d.ts +3 -3
  79. package/dist/contracts/index.js +1 -1
  80. package/dist/contracts/message.d.ts +6 -6
  81. package/dist/contracts/organ-system.d.ts +11 -11
  82. package/dist/contracts/part-registry.d.ts +5 -4
  83. package/dist/contracts/part-registry.js +5 -0
  84. package/dist/contracts/profile-vocabulary.d.ts +11 -10
  85. package/dist/contracts/profile-vocabulary.js +10 -3
  86. package/dist/contracts/report-blocks.d.ts +329 -329
  87. package/dist/contracts/report-reference.d.ts +105 -81
  88. package/dist/contracts/report-reference.js +30 -13
  89. package/dist/contracts/schemas/chat-events.d.ts +45 -6
  90. package/dist/contracts/schemas/chat-events.js +16 -0
  91. package/dist/contracts/schemas/chat-parts.d.ts +214 -102
  92. package/dist/contracts/schemas/chat-parts.js +50 -7
  93. package/dist/contracts/schemas/index.d.ts +1 -1
  94. package/dist/contracts/schemas/index.js +1 -1
  95. package/dist/contracts/severity.d.ts +1 -1
  96. package/dist/contracts/structure-source.d.ts +3 -3
  97. package/dist/contracts/structure-source.js +6 -2
  98. package/dist/contracts/subagent-activity.d.ts +2 -2
  99. package/dist/contracts/subagent-activity.js +5 -3
  100. package/dist/contracts/usage.d.ts +2 -2
  101. package/dist/data/safety-panel-schema.d.ts +25 -25
  102. package/dist/data/safety-panel-schema.js +13 -4
  103. package/dist/execution/artifact-metadata.d.ts +23 -15
  104. package/dist/execution/artifact-metadata.js +33 -10
  105. package/dist/execution/artifact-record.d.ts +2 -2
  106. package/dist/execution/artifact-registration.d.ts +5 -5
  107. package/dist/execution/artifact-registry.d.ts +8 -8
  108. package/dist/execution/dbos-run-launcher.d.ts +24 -4
  109. package/dist/execution/dbos-run-launcher.js +58 -4
  110. package/dist/execution/dbos-workflow-purger.d.ts +7 -6
  111. package/dist/execution/dbos-workflow-purger.js +29 -21
  112. package/dist/execution/input-signature.d.ts +2 -2
  113. package/dist/execution/post-step-pipeline.d.ts +9 -9
  114. package/dist/execution/post-step-pipeline.js +1 -1
  115. package/dist/execution/post-step.js +2 -2
  116. package/dist/execution/reconcile-manifest.d.ts +4 -4
  117. package/dist/execution/reconcile-manifest.js +3 -2
  118. package/dist/execution/run-authorizer.d.ts +46 -37
  119. package/dist/execution/run-authorizer.js +8 -8
  120. package/dist/execution/run-canceler.d.ts +39 -17
  121. package/dist/execution/run-canceler.js +137 -28
  122. package/dist/execution/run-end-record.d.ts +29 -0
  123. package/dist/execution/run-end-record.js +27 -0
  124. package/dist/execution/run-event-parts.d.ts +0 -8
  125. package/dist/execution/run-event-parts.js +29 -24
  126. package/dist/execution/run-event-stream.d.ts +8 -8
  127. package/dist/execution/run-event-stream.js +3 -4
  128. package/dist/execution/run-launcher.d.ts +4 -4
  129. package/dist/execution/run-synthesis.d.ts +49 -48
  130. package/dist/execution/run-synthesis.js +96 -255
  131. package/dist/execution/staged-input.d.ts +2 -2
  132. package/dist/execution/step-summary.d.ts +6 -6
  133. package/dist/execution/step-summary.js +4 -8
  134. package/dist/execution/topo-sort.js +4 -3
  135. package/dist/execution/workflow-purger.d.ts +2 -2
  136. package/dist/index.d.ts +25 -24
  137. package/dist/index.js +36 -37
  138. package/dist/input-sanitization.js +9 -2
  139. package/dist/input-scan/clustering.d.ts +6 -6
  140. package/dist/input-scan/clustering.js +11 -5
  141. package/dist/input-scan/companions.js +3 -2
  142. package/dist/input-scan/detect-sets.d.ts +2 -2
  143. package/dist/input-scan/detect-sets.js +25 -21
  144. package/dist/input-scan/enrich.d.ts +6 -6
  145. package/dist/input-scan/enrich.js +29 -12
  146. package/dist/input-scan/formats.d.ts +2 -2
  147. package/dist/input-scan/formats.js +8 -2
  148. package/dist/input-scan/markers.d.ts +2 -2
  149. package/dist/input-scan/markers.js +14 -5
  150. package/dist/input-scan/menu.d.ts +10 -10
  151. package/dist/input-scan/menu.js +0 -0
  152. package/dist/input-scan/quarantine.d.ts +2 -2
  153. package/dist/input-scan/quarantine.js +23 -18
  154. package/dist/input-scan/readout-budget.d.ts +2 -2
  155. package/dist/input-scan/readout-budget.js +1 -1
  156. package/dist/input-scan/readout.d.ts +2 -2
  157. package/dist/input-scan/readout.js +47 -34
  158. package/dist/input-scan/scan.d.ts +2 -2
  159. package/dist/input-scan/scan.js +7 -5
  160. package/dist/input-scan/set-types.d.ts +28 -28
  161. package/dist/input-scan/shapes.d.ts +4 -4
  162. package/dist/input-scan/shapes.js +0 -0
  163. package/dist/input-scan/templates.d.ts +10 -10
  164. package/dist/input-scan/templates.js +30 -22
  165. package/dist/input-scan/tokens.d.ts +6 -4
  166. package/dist/input-scan/tokens.js +100 -38
  167. package/dist/input-scan/types.d.ts +22 -22
  168. package/dist/lib/async-utils.d.ts +3 -7
  169. package/dist/lib/async-utils.js +5 -9
  170. package/dist/lib/cache.js +1 -1
  171. package/dist/lib/chrome.d.ts +46 -6
  172. package/dist/lib/console-logger.js +2 -2
  173. package/dist/lib/db-result.d.ts +22 -6
  174. package/dist/lib/db-result.js +9 -13
  175. package/dist/lib/eyes.d.ts +4 -4
  176. package/dist/lib/eyes.js +1 -1
  177. package/dist/lib/fs-helpers.js +18 -6
  178. package/dist/lib/fs-result.d.ts +1 -0
  179. package/dist/lib/fs-result.js +5 -6
  180. package/dist/lib/hooks.d.ts +23 -7
  181. package/dist/lib/hooks.js +17 -3
  182. package/dist/lib/host-concurrency.js +3 -2
  183. package/dist/lib/logger.d.ts +2 -2
  184. package/dist/lib/logger.js +2 -1
  185. package/dist/lib/metrics.d.ts +1 -1
  186. package/dist/lib/null-proto.d.ts +6 -0
  187. package/dist/lib/null-proto.js +17 -0
  188. package/dist/lib/otel-spans.d.ts +1 -1
  189. package/dist/lib/otel-spans.js +9 -5
  190. package/dist/lib/otel.d.ts +4 -2
  191. package/dist/lib/otel.js +10 -2
  192. package/dist/lib/page-capture.d.ts +8 -8
  193. package/dist/lib/page-capture.js +9 -4
  194. package/dist/lib/parse-json.d.ts +5 -0
  195. package/dist/lib/parse-json.js +12 -0
  196. package/dist/lib/present.d.ts +12 -0
  197. package/dist/lib/present.js +39 -0
  198. package/dist/lib/rate-limit.d.ts +4 -4
  199. package/dist/lib/rate-limit.js +12 -13
  200. package/dist/lib/regulatory-corpus/fetch-fda-guidance.d.ts +4 -4
  201. package/dist/lib/regulatory-corpus/fetch-fda-guidance.js +4 -10
  202. package/dist/lib/regulatory-corpus/fetch-ich.d.ts +4 -4
  203. package/dist/lib/regulatory-corpus/fetch-ich.js +18 -14
  204. package/dist/lib/regulatory-corpus/normalize-whitespace.d.ts +6 -0
  205. package/dist/lib/regulatory-corpus/normalize-whitespace.js +41 -0
  206. package/dist/lib/regulatory-corpus.d.ts +10 -10
  207. package/dist/lib/regulatory-corpus.js +3 -1
  208. package/dist/lib/result.d.ts +10 -11
  209. package/dist/lib/result.js +15 -13
  210. package/dist/lib/storage.d.ts +2 -2
  211. package/dist/lib/test/async-iterable.d.ts +9 -0
  212. package/dist/lib/test/async-iterable.js +28 -0
  213. package/dist/lib/test/request-url.d.ts +5 -0
  214. package/dist/lib/test/request-url.js +7 -0
  215. package/dist/lib/test/result-assert.d.ts +12 -0
  216. package/dist/lib/test/result-assert.js +17 -0
  217. package/dist/lib/test/text-shapes.d.ts +24 -0
  218. package/dist/lib/test/text-shapes.js +63 -0
  219. package/dist/lib/text.d.ts +22 -0
  220. package/dist/lib/text.js +68 -0
  221. package/dist/lib/thrown.d.ts +18 -0
  222. package/dist/lib/thrown.js +30 -0
  223. package/dist/lib/unknown-array.d.ts +6 -0
  224. package/dist/lib/unknown-array.js +8 -0
  225. package/dist/lib/unknown-containers.d.ts +14 -0
  226. package/dist/lib/unknown-containers.js +17 -0
  227. package/dist/lib/unknown-text.d.ts +8 -0
  228. package/dist/lib/unknown-text.js +28 -0
  229. package/dist/lib/zod-issue-shape.d.ts +1 -1
  230. package/dist/lib/zod-issue-shape.js +31 -31
  231. package/dist/lib/zod-issues.d.ts +3 -3
  232. package/dist/lib/zod-issues.js +30 -17
  233. package/dist/literature/sources/arxiv.d.ts +6 -6
  234. package/dist/literature/sources/arxiv.js +92 -35
  235. package/dist/literature/sources/http.d.ts +2 -2
  236. package/dist/literature/sources/http.js +16 -15
  237. package/dist/literature/sources/pubmed.d.ts +16 -16
  238. package/dist/literature/sources/pubmed.js +96 -61
  239. package/dist/literature/sources/semantic-scholar.d.ts +8 -8
  240. package/dist/literature/sources/semantic-scholar.js +22 -13
  241. package/dist/loop/accounting.d.ts +63 -0
  242. package/dist/loop/accounting.js +141 -0
  243. package/dist/loop/call-policy.d.ts +73 -0
  244. package/dist/loop/call-policy.js +109 -0
  245. package/dist/loop/chat-stream.d.ts +62 -0
  246. package/dist/loop/chat-stream.js +237 -0
  247. package/dist/loop/compaction.d.ts +14 -9
  248. package/dist/loop/compaction.js +17 -0
  249. package/dist/loop/metrics.d.ts +12 -15
  250. package/dist/loop/metrics.js +14 -26
  251. package/dist/loop/run-loop.d.ts +233 -0
  252. package/dist/loop/run-loop.js +770 -0
  253. package/dist/loop/sub-agent.d.ts +61 -0
  254. package/dist/loop/sub-agent.js +161 -0
  255. package/dist/loop/tool-adapter.d.ts +98 -0
  256. package/dist/loop/tool-adapter.js +364 -0
  257. package/dist/loop/tool-detail.d.ts +1 -1
  258. package/dist/loop/tool-detail.js +6 -5
  259. package/dist/loop/tool-outcome.d.ts +1 -1
  260. package/dist/loop/tool-output.d.ts +4 -4
  261. package/dist/loop/tool-output.js +2 -2
  262. package/dist/loop/turn-credentials.d.ts +34 -0
  263. package/dist/loop/turn-credentials.js +73 -0
  264. package/dist/loop/types.d.ts +34 -37
  265. package/dist/loop/types.js +2 -7
  266. package/dist/memory/ai-sdk-message-storage.d.ts +5 -5
  267. package/dist/memory/ai-sdk-message-storage.js +13 -11
  268. package/dist/memory/card-builders.d.ts +14 -14
  269. package/dist/memory/card-builders.js +19 -15
  270. package/dist/memory/conversation-display-recorder.d.ts +22 -6
  271. package/dist/memory/conversation-display-recorder.js +64 -20
  272. package/dist/memory/conversation-display-replay.js +3 -2
  273. package/dist/memory/conversation-display-storage.d.ts +15 -7
  274. package/dist/memory/conversation-display-storage.js +141 -36
  275. package/dist/memory/conversation-view.d.ts +4 -4
  276. package/dist/memory/conversation-view.js +5 -4
  277. package/dist/memory/count-tokens.js +10 -8
  278. package/dist/memory/derive-thread-title.d.ts +0 -13
  279. package/dist/memory/derive-thread-title.js +2 -1
  280. package/dist/memory/message-backfill.d.ts +12 -5
  281. package/dist/memory/message-backfill.js +5 -3
  282. package/dist/memory/thread-history.d.ts +66 -24
  283. package/dist/memory/thread-history.js +212 -79
  284. package/dist/memory/thread-store.d.ts +26 -17
  285. package/dist/memory/thread-store.js +15 -9
  286. package/dist/memory/tool-call-integrity.d.ts +2 -2
  287. package/dist/memory/tool-call-integrity.js +4 -3
  288. package/dist/memory/working-memory.d.ts +16 -12
  289. package/dist/memory/working-memory.js +72 -61
  290. package/dist/prompts/briefing.d.ts +63 -9
  291. package/dist/prompts/briefing.js +130 -3
  292. package/dist/prompts/planner.js +13 -2
  293. package/dist/prompts/synthesis-agent.d.ts +1 -1
  294. package/dist/prompts/synthesis-agent.js +6 -14
  295. package/dist/provenance/collector.d.ts +6 -6
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  297. package/dist/provenance/exec-frame.d.ts +2 -2
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  301. package/dist/provenance/types.d.ts +6 -6
  302. package/dist/providers/ai-sdk.d.ts +113 -62
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  316. package/dist/report-model/assert-rules.js +1 -1
  317. package/dist/report-model/authoring-grammar.d.ts +209 -231
  318. package/dist/report-model/block-walk.d.ts +10 -10
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  337. package/dist/report-model/structural-validation.js +12 -4
  338. package/dist/report-model/validate.d.ts +7 -7
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  340. package/dist/report-render/assets.d.ts +2 -2
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  706. package/dist/tools/research/guarded-address.js +149 -0
  707. package/dist/tools/research/inspect-data-profile.d.ts +27 -20
  708. package/dist/tools/research/inspect-data-profile.js +26 -25
  709. package/dist/tools/research/inspect-run.d.ts +54 -27
  710. package/dist/tools/research/inspect-run.js +50 -40
  711. package/dist/tools/research/literature-reviewer.d.ts +8 -7
  712. package/dist/tools/research/literature-reviewer.js +29 -28
  713. package/dist/tools/research/search-arxiv.d.ts +1 -1
  714. package/dist/tools/research/search-arxiv.js +1 -1
  715. package/dist/tools/research/search-github-repos.d.ts +10 -7
  716. package/dist/tools/research/search-github-repos.js +25 -22
  717. package/dist/tools/research/search-semantic-scholar.js +1 -1
  718. package/dist/tools/research/searxng-engine.d.ts +40 -0
  719. package/dist/tools/research/searxng-engine.js +122 -0
  720. package/dist/tools/research/web-fetch.d.ts +127 -0
  721. package/dist/tools/research/web-fetch.js +618 -0
  722. package/dist/tools/research/web-search.d.ts +84 -0
  723. package/dist/tools/research/web-search.js +117 -0
  724. package/dist/tools/sandbox/link-packages.d.ts +11 -7
  725. package/dist/tools/sandbox/link-packages.js +11 -8
  726. package/dist/tools/sandbox/list-available-packages.d.ts +24 -12
  727. package/dist/tools/sandbox/list-available-packages.js +43 -29
  728. package/dist/tools/sandbox/list-available-refs.d.ts +38 -14
  729. package/dist/tools/sandbox/list-available-refs.js +119 -37
  730. package/dist/tools/sandbox/report-blocker.d.ts +30 -37
  731. package/dist/tools/sandbox/report-blocker.js +22 -68
  732. package/dist/tools/sandbox/skills.d.ts +16 -12
  733. package/dist/tools/sandbox/skills.js +16 -12
  734. package/dist/tools/sandbox/submit-file-metadata.d.ts +12 -9
  735. package/dist/tools/sandbox/submit-file-metadata.js +18 -21
  736. package/dist/tools/start-report-session.d.ts +13 -5
  737. package/dist/tools/start-report-session.js +35 -8
  738. package/dist/tools/terminal-text.d.ts +14 -0
  739. package/dist/tools/terminal-text.js +51 -0
  740. package/dist/tools/workspace/decision-record.d.ts +81 -0
  741. package/dist/tools/workspace/decision-record.js +127 -0
  742. package/dist/tools/workspace/edit-file.d.ts +59 -18
  743. package/dist/tools/workspace/edit-file.js +98 -15
  744. package/dist/tools/workspace/execute-command.d.ts +31 -12
  745. package/dist/tools/workspace/execute-command.js +37 -8
  746. package/dist/tools/workspace/file-stat.d.ts +6 -3
  747. package/dist/tools/workspace/grep.d.ts +10 -7
  748. package/dist/tools/workspace/grep.js +9 -3
  749. package/dist/tools/workspace/index.d.ts +1 -0
  750. package/dist/tools/workspace/index.js +1 -0
  751. package/dist/tools/workspace/list-files.d.ts +6 -3
  752. package/dist/tools/workspace/mutator.d.ts +28 -15
  753. package/dist/tools/workspace/mutator.js +107 -53
  754. package/dist/tools/workspace/read-file.d.ts +8 -5
  755. package/dist/tools/workspace/result-bounds.d.ts +5 -5
  756. package/dist/tools/workspace/result-bounds.js +4 -2
  757. package/dist/tools/workspace/run-exec.d.ts +2 -2
  758. package/dist/tools/workspace/run-exec.js +3 -3
  759. package/dist/tools/workspace/scan-inputs.d.ts +8 -5
  760. package/dist/tools/workspace/scan-inputs.js +17 -5
  761. package/dist/tools/workspace/show-file.d.ts +1 -1
  762. package/dist/tools/workspace/show-file.js +2 -1
  763. package/dist/tools/workspace/show-plan.d.ts +8 -5
  764. package/dist/tools/workspace/show-plan.js +9 -8
  765. package/dist/tools/workspace/workspace-search.d.ts +41 -13
  766. package/dist/tools/workspace/workspace-search.js +27 -14
  767. package/dist/tools/workspace/write-file.d.ts +9 -7
  768. package/dist/workflows/execute-analysis-scheduler.d.ts +9 -9
  769. package/dist/workflows/execute-analysis-scheduler.js +6 -3
  770. package/dist/workflows/execute-analysis.d.ts +100 -76
  771. package/dist/workflows/execute-analysis.js +380 -247
  772. package/dist/workflows/pause.d.ts +71 -0
  773. package/dist/workflows/pause.js +173 -0
  774. package/dist/workflows/sandbox-step.d.ts +50 -61
  775. package/dist/workflows/sandbox-step.js +99 -106
  776. package/dist/workflows/test/sql-writes.d.ts +21 -0
  777. package/dist/workflows/test/sql-writes.js +36 -0
  778. package/dist/workspace/filesystem.d.ts +6 -6
  779. package/dist/workspace/filesystem.js +10 -8
  780. package/dist/workspace/paths.d.ts +1 -1
  781. package/dist/workspace/paths.js +15 -4
  782. package/dist/workspace/search-config.d.ts +2 -2
  783. package/dist/workspace/search-config.js +1 -1
  784. package/package.json +25 -22
  785. package/dist/loop/continue-agent.d.ts +0 -40
  786. package/dist/loop/continue-agent.js +0 -38
  787. package/dist/loop/genai-spans.d.ts +0 -47
  788. package/dist/loop/genai-spans.js +0 -134
  789. package/dist/loop/run-agent.d.ts +0 -236
  790. package/dist/loop/run-agent.js +0 -1110
  791. package/dist/loop/run-step.d.ts +0 -29
  792. package/dist/loop/run-step.js +0 -34
  793. package/dist/loop/run-to-terminal.d.ts +0 -66
  794. package/dist/loop/run-to-terminal.js +0 -90
  795. package/dist/loop/tool-mask.d.ts +0 -23
  796. package/dist/loop/tool-mask.js +0 -46
  797. package/dist/providers/streaming-chat.d.ts +0 -32
  798. package/dist/providers/streaming-chat.js +0 -91
  799. package/dist/tasks/derive-table-exec.d.ts +0 -54
  800. package/dist/tasks/derive-table-exec.js +0 -86
  801. package/dist/workflows/suspension.d.ts +0 -32
  802. package/dist/workflows/suspension.js +0 -38
@@ -14,6 +14,32 @@
14
14
  * payload, thus the grounding and the resolution read the same pin as before.
15
15
  */
16
16
  import { z } from "zod";
17
+ /** A reference to a whole table artifact, by the path of the artifact. */
18
+ declare const AuthoringTableReferenceSchema: z.ZodObject<{
19
+ run: z.ZodOptional<z.ZodString>;
20
+ path: z.ZodString;
21
+ snapshot: z.ZodOptional<z.ZodString>;
22
+ unit: z.ZodOptional<z.ZodString>;
23
+ format: z.ZodOptional<z.ZodString>;
24
+ kind: z.ZodLiteral<"artifact-table">;
25
+ rowBound: z.ZodOptional<z.ZodObject<{
26
+ column: z.ZodString;
27
+ count: z.ZodNumber;
28
+ order: z.ZodOptional<z.ZodEnum<{
29
+ asc: "asc";
30
+ desc: "desc";
31
+ }>>;
32
+ }, z.core.$strict>>;
33
+ columns: z.ZodOptional<z.ZodArray<z.ZodString>>;
34
+ columnMeanings: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodEnum<{
35
+ category: "category";
36
+ count: "count";
37
+ effect: "effect";
38
+ identifier: "identifier";
39
+ "p-value": "p-value";
40
+ }>>>;
41
+ columnLabels: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodString>>;
42
+ }, z.core.$strict>;
17
43
  /**
18
44
  * The seven atoms of the authoring surface.
19
45
  *
@@ -37,10 +63,12 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
37
63
  prose: z.ZodString;
38
64
  }, z.core.$strict>;
39
65
  bindings: z.ZodArray<z.ZodDiscriminatedUnion<[z.ZodObject<{
40
- format: z.ZodOptional<z.ZodString>;
41
- kind: z.ZodLiteral<"artifact-value">;
66
+ run: z.ZodOptional<z.ZodString>;
42
67
  path: z.ZodString;
68
+ snapshot: z.ZodOptional<z.ZodString>;
43
69
  unit: z.ZodOptional<z.ZodString>;
70
+ format: z.ZodOptional<z.ZodString>;
71
+ kind: z.ZodLiteral<"artifact-value">;
44
72
  locator: z.ZodObject<{
45
73
  column: z.ZodString;
46
74
  rowFilter: z.ZodOptional<z.ZodObject<{
@@ -54,13 +82,13 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
54
82
  value: z.ZodUnion<readonly [z.ZodString, z.ZodNumber]>;
55
83
  tolerance: z.ZodOptional<z.ZodNumber>;
56
84
  }, z.core.$strict>>;
85
+ }, z.core.$strict>, z.ZodObject<{
57
86
  run: z.ZodOptional<z.ZodString>;
87
+ path: z.ZodString;
58
88
  snapshot: z.ZodOptional<z.ZodString>;
59
- }, z.core.$strict>, z.ZodObject<{
89
+ unit: z.ZodOptional<z.ZodString>;
60
90
  format: z.ZodOptional<z.ZodString>;
61
91
  kind: z.ZodLiteral<"artifact-table">;
62
- path: z.ZodString;
63
- unit: z.ZodOptional<z.ZodString>;
64
92
  rowBound: z.ZodOptional<z.ZodObject<{
65
93
  column: z.ZodString;
66
94
  count: z.ZodNumber;
@@ -71,40 +99,40 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
71
99
  }, z.core.$strict>>;
72
100
  columns: z.ZodOptional<z.ZodArray<z.ZodString>>;
73
101
  columnMeanings: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodEnum<{
102
+ category: "category";
74
103
  count: "count";
104
+ effect: "effect";
75
105
  identifier: "identifier";
76
- category: "category";
77
106
  "p-value": "p-value";
78
- effect: "effect";
79
107
  }>>>;
80
108
  columnLabels: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodString>>;
109
+ }, z.core.$strict>, z.ZodObject<{
81
110
  run: z.ZodOptional<z.ZodString>;
111
+ path: z.ZodString;
82
112
  snapshot: z.ZodOptional<z.ZodString>;
83
- }, z.core.$strict>, z.ZodObject<{
113
+ unit: z.ZodOptional<z.ZodString>;
84
114
  format: z.ZodOptional<z.ZodString>;
85
115
  kind: z.ZodLiteral<"artifact-file">;
86
- path: z.ZodString;
87
- unit: z.ZodOptional<z.ZodString>;
88
- run: z.ZodOptional<z.ZodString>;
89
- snapshot: z.ZodOptional<z.ZodString>;
90
116
  }, z.core.$strict>, z.ZodObject<{
91
117
  unit: z.ZodOptional<z.ZodString>;
92
118
  format: z.ZodOptional<z.ZodString>;
93
119
  kind: z.ZodLiteral<"derivation">;
94
120
  op: z.ZodEnum<{
95
- ratio: "ratio";
96
121
  delta: "delta";
97
122
  pctChange: "pctChange";
123
+ ratio: "ratio";
98
124
  }>;
99
125
  assert: z.ZodOptional<z.ZodObject<{
100
126
  value: z.ZodUnion<readonly [z.ZodString, z.ZodNumber]>;
101
127
  tolerance: z.ZodOptional<z.ZodNumber>;
102
128
  }, z.core.$strict>>;
103
129
  inputs: z.ZodArray<z.ZodObject<{
104
- format: z.ZodOptional<z.ZodString>;
105
- kind: z.ZodLiteral<"artifact-value">;
130
+ run: z.ZodOptional<z.ZodString>;
106
131
  path: z.ZodString;
132
+ snapshot: z.ZodOptional<z.ZodString>;
107
133
  unit: z.ZodOptional<z.ZodString>;
134
+ format: z.ZodOptional<z.ZodString>;
135
+ kind: z.ZodLiteral<"artifact-value">;
108
136
  locator: z.ZodObject<{
109
137
  column: z.ZodString;
110
138
  rowFilter: z.ZodOptional<z.ZodObject<{
@@ -118,17 +146,15 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
118
146
  value: z.ZodUnion<readonly [z.ZodString, z.ZodNumber]>;
119
147
  tolerance: z.ZodOptional<z.ZodNumber>;
120
148
  }, z.core.$strict>>;
121
- run: z.ZodOptional<z.ZodString>;
122
- snapshot: z.ZodOptional<z.ZodString>;
123
149
  }, z.core.$strict>>;
124
150
  }, z.core.$strict>, z.ZodObject<{
125
151
  unit: z.ZodOptional<z.ZodString>;
126
152
  format: z.ZodOptional<z.ZodString>;
127
153
  kind: z.ZodLiteral<"citation">;
128
154
  idKind: z.ZodEnum<{
155
+ arxiv: "arxiv";
129
156
  doi: "doi";
130
157
  pmid: "pmid";
131
- arxiv: "arxiv";
132
158
  }>;
133
159
  id: z.ZodString;
134
160
  raw: z.ZodString;
@@ -141,10 +167,12 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
141
167
  id: z.ZodString;
142
168
  label: z.ZodString;
143
169
  value: z.ZodDiscriminatedUnion<[z.ZodObject<{
144
- format: z.ZodOptional<z.ZodString>;
145
- kind: z.ZodLiteral<"artifact-value">;
170
+ run: z.ZodOptional<z.ZodString>;
146
171
  path: z.ZodString;
172
+ snapshot: z.ZodOptional<z.ZodString>;
147
173
  unit: z.ZodOptional<z.ZodString>;
174
+ format: z.ZodOptional<z.ZodString>;
175
+ kind: z.ZodLiteral<"artifact-value">;
148
176
  locator: z.ZodObject<{
149
177
  column: z.ZodString;
150
178
  rowFilter: z.ZodOptional<z.ZodObject<{
@@ -158,26 +186,26 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
158
186
  value: z.ZodUnion<readonly [z.ZodString, z.ZodNumber]>;
159
187
  tolerance: z.ZodOptional<z.ZodNumber>;
160
188
  }, z.core.$strict>>;
161
- run: z.ZodOptional<z.ZodString>;
162
- snapshot: z.ZodOptional<z.ZodString>;
163
189
  }, z.core.$strict>, z.ZodObject<{
164
190
  unit: z.ZodOptional<z.ZodString>;
165
191
  format: z.ZodOptional<z.ZodString>;
166
192
  kind: z.ZodLiteral<"derivation">;
167
193
  op: z.ZodEnum<{
168
- ratio: "ratio";
169
194
  delta: "delta";
170
195
  pctChange: "pctChange";
196
+ ratio: "ratio";
171
197
  }>;
172
198
  assert: z.ZodOptional<z.ZodObject<{
173
199
  value: z.ZodUnion<readonly [z.ZodString, z.ZodNumber]>;
174
200
  tolerance: z.ZodOptional<z.ZodNumber>;
175
201
  }, z.core.$strict>>;
176
202
  inputs: z.ZodArray<z.ZodObject<{
177
- format: z.ZodOptional<z.ZodString>;
178
- kind: z.ZodLiteral<"artifact-value">;
203
+ run: z.ZodOptional<z.ZodString>;
179
204
  path: z.ZodString;
205
+ snapshot: z.ZodOptional<z.ZodString>;
180
206
  unit: z.ZodOptional<z.ZodString>;
207
+ format: z.ZodOptional<z.ZodString>;
208
+ kind: z.ZodLiteral<"artifact-value">;
181
209
  locator: z.ZodObject<{
182
210
  column: z.ZodString;
183
211
  rowFilter: z.ZodOptional<z.ZodObject<{
@@ -191,8 +219,6 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
191
219
  value: z.ZodUnion<readonly [z.ZodString, z.ZodNumber]>;
192
220
  tolerance: z.ZodOptional<z.ZodNumber>;
193
221
  }, z.core.$strict>>;
194
- run: z.ZodOptional<z.ZodString>;
195
- snapshot: z.ZodOptional<z.ZodString>;
196
222
  }, z.core.$strict>>;
197
223
  }, z.core.$strict>], "kind">;
198
224
  }, z.core.$strict>, z.ZodObject<{
@@ -201,36 +227,12 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
201
227
  title: z.ZodOptional<z.ZodString>;
202
228
  caption: z.ZodOptional<z.ZodString>;
203
229
  binding: z.ZodObject<{
204
- format: z.ZodOptional<z.ZodString>;
205
- kind: z.ZodLiteral<"artifact-table">;
206
- path: z.ZodString;
207
- unit: z.ZodOptional<z.ZodString>;
208
- rowBound: z.ZodOptional<z.ZodObject<{
209
- column: z.ZodString;
210
- count: z.ZodNumber;
211
- order: z.ZodOptional<z.ZodEnum<{
212
- asc: "asc";
213
- desc: "desc";
214
- }>>;
215
- }, z.core.$strict>>;
216
- columns: z.ZodOptional<z.ZodArray<z.ZodString>>;
217
- columnMeanings: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodEnum<{
218
- count: "count";
219
- identifier: "identifier";
220
- category: "category";
221
- "p-value": "p-value";
222
- effect: "effect";
223
- }>>>;
224
- columnLabels: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodString>>;
225
230
  run: z.ZodOptional<z.ZodString>;
231
+ path: z.ZodString;
226
232
  snapshot: z.ZodOptional<z.ZodString>;
227
- }, z.core.$strict>;
228
- }, z.core.$strict>, z.ZodObject<{
229
- binding: z.ZodObject<{
233
+ unit: z.ZodOptional<z.ZodString>;
230
234
  format: z.ZodOptional<z.ZodString>;
231
235
  kind: z.ZodLiteral<"artifact-table">;
232
- path: z.ZodString;
233
- unit: z.ZodOptional<z.ZodString>;
234
236
  rowBound: z.ZodOptional<z.ZodObject<{
235
237
  column: z.ZodString;
236
238
  count: z.ZodNumber;
@@ -241,172 +243,54 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
241
243
  }, z.core.$strict>>;
242
244
  columns: z.ZodOptional<z.ZodArray<z.ZodString>>;
243
245
  columnMeanings: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodEnum<{
246
+ category: "category";
244
247
  count: "count";
248
+ effect: "effect";
245
249
  identifier: "identifier";
246
- category: "category";
247
250
  "p-value": "p-value";
248
- effect: "effect";
249
251
  }>>>;
250
252
  columnLabels: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodString>>;
251
- run: z.ZodOptional<z.ZodString>;
252
- snapshot: z.ZodOptional<z.ZodString>;
253
253
  }, z.core.$strict>;
254
- statistics: z.ZodOptional<z.ZodArray<z.ZodObject<{
255
- label: z.ZodString;
256
- value: z.ZodObject<{
257
- format: z.ZodOptional<z.ZodString>;
258
- kind: z.ZodLiteral<"artifact-value">;
259
- path: z.ZodString;
260
- unit: z.ZodOptional<z.ZodString>;
261
- locator: z.ZodObject<{
262
- column: z.ZodString;
263
- rowFilter: z.ZodOptional<z.ZodObject<{
264
- column: z.ZodString;
265
- op: z.ZodLiteral<"eq">;
266
- value: z.ZodUnion<readonly [z.ZodString, z.ZodNumber]>;
267
- }, z.core.$strict>>;
268
- row: z.ZodOptional<z.ZodNumber>;
269
- }, z.core.$strict>;
270
- assert: z.ZodOptional<z.ZodObject<{
271
- value: z.ZodUnion<readonly [z.ZodString, z.ZodNumber]>;
272
- tolerance: z.ZodOptional<z.ZodNumber>;
273
- }, z.core.$strict>>;
274
- run: z.ZodOptional<z.ZodString>;
275
- snapshot: z.ZodOptional<z.ZodString>;
276
- }, z.core.$strict>;
277
- }, z.core.$strict>>>;
278
- track: z.ZodOptional<z.ZodObject<{
279
- start: z.ZodString;
280
- end: z.ZodString;
281
- label: z.ZodString;
282
- length: z.ZodOptional<z.ZodString>;
283
- binding: z.ZodObject<{
284
- format: z.ZodOptional<z.ZodString>;
285
- kind: z.ZodLiteral<"artifact-table">;
286
- path: z.ZodString;
287
- unit: z.ZodOptional<z.ZodString>;
288
- rowBound: z.ZodOptional<z.ZodObject<{
289
- column: z.ZodString;
290
- count: z.ZodNumber;
291
- order: z.ZodOptional<z.ZodEnum<{
292
- asc: "asc";
293
- desc: "desc";
294
- }>>;
295
- }, z.core.$strict>>;
296
- columns: z.ZodOptional<z.ZodArray<z.ZodString>>;
297
- columnMeanings: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodEnum<{
298
- count: "count";
299
- identifier: "identifier";
300
- category: "category";
301
- "p-value": "p-value";
302
- effect: "effect";
303
- }>>>;
304
- columnLabels: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodString>>;
305
- run: z.ZodOptional<z.ZodString>;
306
- snapshot: z.ZodOptional<z.ZodString>;
307
- }, z.core.$strict>;
308
- }, z.core.$strict>>;
309
- trees: z.ZodOptional<z.ZodObject<{
310
- x: z.ZodOptional<z.ZodObject<{
311
- parent: z.ZodString;
312
- child: z.ZodString;
313
- height: z.ZodString;
314
- binding: z.ZodObject<{
315
- format: z.ZodOptional<z.ZodString>;
316
- kind: z.ZodLiteral<"artifact-table">;
317
- path: z.ZodString;
318
- unit: z.ZodOptional<z.ZodString>;
319
- rowBound: z.ZodOptional<z.ZodObject<{
320
- column: z.ZodString;
321
- count: z.ZodNumber;
322
- order: z.ZodOptional<z.ZodEnum<{
323
- asc: "asc";
324
- desc: "desc";
325
- }>>;
326
- }, z.core.$strict>>;
327
- columns: z.ZodOptional<z.ZodArray<z.ZodString>>;
328
- columnMeanings: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodEnum<{
329
- count: "count";
330
- identifier: "identifier";
331
- category: "category";
332
- "p-value": "p-value";
333
- effect: "effect";
334
- }>>>;
335
- columnLabels: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodString>>;
336
- run: z.ZodOptional<z.ZodString>;
337
- snapshot: z.ZodOptional<z.ZodString>;
338
- }, z.core.$strict>;
339
- }, z.core.$strict>>;
340
- y: z.ZodOptional<z.ZodObject<{
341
- parent: z.ZodString;
342
- child: z.ZodString;
343
- height: z.ZodString;
344
- binding: z.ZodObject<{
345
- format: z.ZodOptional<z.ZodString>;
346
- kind: z.ZodLiteral<"artifact-table">;
347
- path: z.ZodString;
348
- unit: z.ZodOptional<z.ZodString>;
349
- rowBound: z.ZodOptional<z.ZodObject<{
350
- column: z.ZodString;
351
- count: z.ZodNumber;
352
- order: z.ZodOptional<z.ZodEnum<{
353
- asc: "asc";
354
- desc: "desc";
355
- }>>;
356
- }, z.core.$strict>>;
357
- columns: z.ZodOptional<z.ZodArray<z.ZodString>>;
358
- columnMeanings: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodEnum<{
359
- count: "count";
360
- identifier: "identifier";
361
- category: "category";
362
- "p-value": "p-value";
363
- effect: "effect";
364
- }>>>;
365
- columnLabels: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodString>>;
366
- run: z.ZodOptional<z.ZodString>;
367
- snapshot: z.ZodOptional<z.ZodString>;
368
- }, z.core.$strict>;
369
- }, z.core.$strict>>;
370
- }, z.core.$strict>>;
254
+ }, z.core.$strict>, z.ZodObject<{
371
255
  kind: z.ZodLiteral<"chart">;
372
256
  id: z.ZodString;
373
257
  title: z.ZodOptional<z.ZodString>;
374
258
  chartType: z.ZodOptional<z.ZodEnum<{
375
259
  bar: "bar";
376
- line: "line";
377
- scatter: "scatter";
378
- histogram: "histogram";
379
260
  box: "box";
380
- heatmap: "heatmap";
381
- pie: "pie";
382
- violin: "violin";
383
- "stacked-bar": "stacked-bar";
384
- "normalized-bar": "normalized-bar";
385
- radar: "radar";
386
- volcano: "volcano";
387
- manhattan: "manhattan";
388
- ma: "ma";
389
- km: "km";
390
- pca: "pca";
391
- embedding: "embedding";
392
261
  dotplot: "dotplot";
262
+ embedding: "embedding";
393
263
  forest: "forest";
394
- roc: "roc";
395
- qq: "qq";
396
264
  gsea: "gsea";
397
- oncoprint: "oncoprint";
265
+ heatmap: "heatmap";
266
+ histogram: "histogram";
267
+ km: "km";
268
+ line: "line";
269
+ locuszoom: "locuszoom";
398
270
  lollipop: "lollipop";
399
- upset: "upset";
271
+ ma: "ma";
272
+ manhattan: "manhattan";
273
+ "normalized-bar": "normalized-bar";
274
+ oncoprint: "oncoprint";
275
+ pca: "pca";
276
+ pie: "pie";
277
+ qq: "qq";
278
+ radar: "radar";
279
+ roc: "roc";
400
280
  sankey: "sankey";
401
- locuszoom: "locuszoom";
281
+ scatter: "scatter";
282
+ "stacked-bar": "stacked-bar";
283
+ upset: "upset";
284
+ violin: "violin";
285
+ volcano: "volcano";
402
286
  }>>;
403
287
  encoding: z.ZodOptional<z.ZodObject<{
404
288
  x: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
405
289
  column: z.ZodString;
406
290
  transform: z.ZodOptional<z.ZodEnum<{
291
+ abs: "abs";
407
292
  log10: "log10";
408
293
  neg_log10: "neg_log10";
409
- abs: "abs";
410
294
  rank: "rank";
411
295
  }>>;
412
296
  orderBy: z.ZodOptional<z.ZodString>;
@@ -418,9 +302,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
418
302
  y: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
419
303
  column: z.ZodString;
420
304
  transform: z.ZodOptional<z.ZodEnum<{
305
+ abs: "abs";
421
306
  log10: "log10";
422
307
  neg_log10: "neg_log10";
423
- abs: "abs";
424
308
  rank: "rank";
425
309
  }>>;
426
310
  orderBy: z.ZodOptional<z.ZodString>;
@@ -432,9 +316,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
432
316
  group: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
433
317
  column: z.ZodString;
434
318
  transform: z.ZodOptional<z.ZodEnum<{
319
+ abs: "abs";
435
320
  log10: "log10";
436
321
  neg_log10: "neg_log10";
437
- abs: "abs";
438
322
  rank: "rank";
439
323
  }>>;
440
324
  orderBy: z.ZodOptional<z.ZodString>;
@@ -446,9 +330,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
446
330
  value: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
447
331
  column: z.ZodString;
448
332
  transform: z.ZodOptional<z.ZodEnum<{
333
+ abs: "abs";
449
334
  log10: "log10";
450
335
  neg_log10: "neg_log10";
451
- abs: "abs";
452
336
  rank: "rank";
453
337
  }>>;
454
338
  orderBy: z.ZodOptional<z.ZodString>;
@@ -461,9 +345,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
461
345
  color: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
462
346
  column: z.ZodString;
463
347
  transform: z.ZodOptional<z.ZodEnum<{
348
+ abs: "abs";
464
349
  log10: "log10";
465
350
  neg_log10: "neg_log10";
466
- abs: "abs";
467
351
  rank: "rank";
468
352
  }>>;
469
353
  orderBy: z.ZodOptional<z.ZodString>;
@@ -475,9 +359,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
475
359
  size: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
476
360
  column: z.ZodString;
477
361
  transform: z.ZodOptional<z.ZodEnum<{
362
+ abs: "abs";
478
363
  log10: "log10";
479
364
  neg_log10: "neg_log10";
480
- abs: "abs";
481
365
  rank: "rank";
482
366
  }>>;
483
367
  orderBy: z.ZodOptional<z.ZodString>;
@@ -489,9 +373,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
489
373
  low: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
490
374
  column: z.ZodString;
491
375
  transform: z.ZodOptional<z.ZodEnum<{
376
+ abs: "abs";
492
377
  log10: "log10";
493
378
  neg_log10: "neg_log10";
494
- abs: "abs";
495
379
  rank: "rank";
496
380
  }>>;
497
381
  orderBy: z.ZodOptional<z.ZodString>;
@@ -503,9 +387,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
503
387
  high: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
504
388
  column: z.ZodString;
505
389
  transform: z.ZodOptional<z.ZodEnum<{
390
+ abs: "abs";
506
391
  log10: "log10";
507
392
  neg_log10: "neg_log10";
508
- abs: "abs";
509
393
  rank: "rank";
510
394
  }>>;
511
395
  orderBy: z.ZodOptional<z.ZodString>;
@@ -517,9 +401,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
517
401
  facet: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
518
402
  column: z.ZodString;
519
403
  transform: z.ZodOptional<z.ZodEnum<{
404
+ abs: "abs";
520
405
  log10: "log10";
521
406
  neg_log10: "neg_log10";
522
- abs: "abs";
523
407
  rank: "rank";
524
408
  }>>;
525
409
  orderBy: z.ZodOptional<z.ZodString>;
@@ -531,9 +415,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
531
415
  shape: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
532
416
  column: z.ZodString;
533
417
  transform: z.ZodOptional<z.ZodEnum<{
418
+ abs: "abs";
534
419
  log10: "log10";
535
420
  neg_log10: "neg_log10";
536
- abs: "abs";
537
421
  rank: "rank";
538
422
  }>>;
539
423
  orderBy: z.ZodOptional<z.ZodString>;
@@ -545,9 +429,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
545
429
  p: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
546
430
  column: z.ZodString;
547
431
  transform: z.ZodOptional<z.ZodEnum<{
432
+ abs: "abs";
548
433
  log10: "log10";
549
434
  neg_log10: "neg_log10";
550
- abs: "abs";
551
435
  rank: "rank";
552
436
  }>>;
553
437
  orderBy: z.ZodOptional<z.ZodString>;
@@ -559,9 +443,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
559
443
  censor: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
560
444
  column: z.ZodString;
561
445
  transform: z.ZodOptional<z.ZodEnum<{
446
+ abs: "abs";
562
447
  log10: "log10";
563
448
  neg_log10: "neg_log10";
564
- abs: "abs";
565
449
  rank: "rank";
566
450
  }>>;
567
451
  orderBy: z.ZodOptional<z.ZodString>;
@@ -573,9 +457,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
573
457
  risk: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
574
458
  column: z.ZodString;
575
459
  transform: z.ZodOptional<z.ZodEnum<{
460
+ abs: "abs";
576
461
  log10: "log10";
577
462
  neg_log10: "neg_log10";
578
- abs: "abs";
579
463
  rank: "rank";
580
464
  }>>;
581
465
  orderBy: z.ZodOptional<z.ZodString>;
@@ -587,9 +471,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
587
471
  hit: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
588
472
  column: z.ZodString;
589
473
  transform: z.ZodOptional<z.ZodEnum<{
474
+ abs: "abs";
590
475
  log10: "log10";
591
476
  neg_log10: "neg_log10";
592
- abs: "abs";
593
477
  rank: "rank";
594
478
  }>>;
595
479
  orderBy: z.ZodOptional<z.ZodString>;
@@ -601,9 +485,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
601
485
  metric: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
602
486
  column: z.ZodString;
603
487
  transform: z.ZodOptional<z.ZodEnum<{
488
+ abs: "abs";
604
489
  log10: "log10";
605
490
  neg_log10: "neg_log10";
606
- abs: "abs";
607
491
  rank: "rank";
608
492
  }>>;
609
493
  orderBy: z.ZodOptional<z.ZodString>;
@@ -615,8 +499,8 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
615
499
  tracks: z.ZodOptional<z.ZodArray<z.ZodString>>;
616
500
  }, z.core.$strict>>;
617
501
  orientation: z.ZodOptional<z.ZodEnum<{
618
- vertical: "vertical";
619
502
  horizontal: "horizontal";
503
+ vertical: "vertical";
620
504
  }>>;
621
505
  thresholds: z.ZodOptional<z.ZodObject<{
622
506
  significance: z.ZodNumber;
@@ -625,19 +509,19 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
625
509
  composition: z.ZodOptional<z.ZodObject<{
626
510
  series: z.ZodArray<z.ZodObject<{
627
511
  form: z.ZodEnum<{
628
- step: "step";
512
+ area: "area";
629
513
  bar: "bar";
630
514
  line: "line";
631
515
  scatter: "scatter";
632
- area: "area";
516
+ step: "step";
633
517
  }>;
634
518
  encoding: z.ZodObject<{
635
519
  x: z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
636
520
  column: z.ZodString;
637
521
  transform: z.ZodOptional<z.ZodEnum<{
522
+ abs: "abs";
638
523
  log10: "log10";
639
524
  neg_log10: "neg_log10";
640
- abs: "abs";
641
525
  rank: "rank";
642
526
  }>>;
643
527
  orderBy: z.ZodOptional<z.ZodString>;
@@ -649,9 +533,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
649
533
  y: z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
650
534
  column: z.ZodString;
651
535
  transform: z.ZodOptional<z.ZodEnum<{
536
+ abs: "abs";
652
537
  log10: "log10";
653
538
  neg_log10: "neg_log10";
654
- abs: "abs";
655
539
  rank: "rank";
656
540
  }>>;
657
541
  orderBy: z.ZodOptional<z.ZodString>;
@@ -663,9 +547,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
663
547
  y0: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
664
548
  column: z.ZodString;
665
549
  transform: z.ZodOptional<z.ZodEnum<{
550
+ abs: "abs";
666
551
  log10: "log10";
667
552
  neg_log10: "neg_log10";
668
- abs: "abs";
669
553
  rank: "rank";
670
554
  }>>;
671
555
  orderBy: z.ZodOptional<z.ZodString>;
@@ -677,9 +561,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
677
561
  group: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
678
562
  column: z.ZodString;
679
563
  transform: z.ZodOptional<z.ZodEnum<{
564
+ abs: "abs";
680
565
  log10: "log10";
681
566
  neg_log10: "neg_log10";
682
- abs: "abs";
683
567
  rank: "rank";
684
568
  }>>;
685
569
  orderBy: z.ZodOptional<z.ZodString>;
@@ -692,9 +576,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
692
576
  color: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
693
577
  column: z.ZodString;
694
578
  transform: z.ZodOptional<z.ZodEnum<{
579
+ abs: "abs";
695
580
  log10: "log10";
696
581
  neg_log10: "neg_log10";
697
- abs: "abs";
698
582
  rank: "rank";
699
583
  }>>;
700
584
  orderBy: z.ZodOptional<z.ZodString>;
@@ -706,9 +590,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
706
590
  size: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
707
591
  column: z.ZodString;
708
592
  transform: z.ZodOptional<z.ZodEnum<{
593
+ abs: "abs";
709
594
  log10: "log10";
710
595
  neg_log10: "neg_log10";
711
- abs: "abs";
712
596
  rank: "rank";
713
597
  }>>;
714
598
  orderBy: z.ZodOptional<z.ZodString>;
@@ -720,9 +604,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
720
604
  low: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
721
605
  column: z.ZodString;
722
606
  transform: z.ZodOptional<z.ZodEnum<{
607
+ abs: "abs";
723
608
  log10: "log10";
724
609
  neg_log10: "neg_log10";
725
- abs: "abs";
726
610
  rank: "rank";
727
611
  }>>;
728
612
  orderBy: z.ZodOptional<z.ZodString>;
@@ -734,9 +618,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
734
618
  high: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
735
619
  column: z.ZodString;
736
620
  transform: z.ZodOptional<z.ZodEnum<{
621
+ abs: "abs";
737
622
  log10: "log10";
738
623
  neg_log10: "neg_log10";
739
- abs: "abs";
740
624
  rank: "rank";
741
625
  }>>;
742
626
  orderBy: z.ZodOptional<z.ZodString>;
@@ -748,8 +632,8 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
748
632
  }, z.core.$strict>;
749
633
  name: z.ZodOptional<z.ZodString>;
750
634
  orientation: z.ZodOptional<z.ZodEnum<{
751
- vertical: "vertical";
752
635
  horizontal: "horizontal";
636
+ vertical: "vertical";
753
637
  }>>;
754
638
  }, z.core.$strict>>;
755
639
  annotations: z.ZodOptional<z.ZodArray<z.ZodDiscriminatedUnion<[z.ZodObject<{
@@ -782,24 +666,24 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
782
666
  x: z.ZodOptional<z.ZodObject<{
783
667
  title: z.ZodOptional<z.ZodString>;
784
668
  scale: z.ZodOptional<z.ZodEnum<{
785
- log: "log";
786
669
  linear: "linear";
670
+ log: "log";
787
671
  }>>;
788
672
  }, z.core.$strict>>;
789
673
  y: z.ZodOptional<z.ZodObject<{
790
674
  title: z.ZodOptional<z.ZodString>;
791
675
  scale: z.ZodOptional<z.ZodEnum<{
792
- log: "log";
793
676
  linear: "linear";
677
+ log: "log";
794
678
  }>>;
795
679
  }, z.core.$strict>>;
796
680
  }, z.core.$strict>>;
797
681
  facet: z.ZodOptional<z.ZodUnion<readonly [z.ZodString, z.ZodObject<{
798
682
  column: z.ZodString;
799
683
  transform: z.ZodOptional<z.ZodEnum<{
684
+ abs: "abs";
800
685
  log10: "log10";
801
686
  neg_log10: "neg_log10";
802
- abs: "abs";
803
687
  rank: "rank";
804
688
  }>>;
805
689
  orderBy: z.ZodOptional<z.ZodString>;
@@ -811,17 +695,111 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
811
695
  }, z.core.$strict>>;
812
696
  focus: z.ZodOptional<z.ZodArray<z.ZodString>>;
813
697
  caption: z.ZodOptional<z.ZodString>;
698
+ binding: z.ZodObject<{
699
+ run: z.ZodOptional<z.ZodString>;
700
+ path: z.ZodString;
701
+ snapshot: z.ZodOptional<z.ZodString>;
702
+ unit: z.ZodOptional<z.ZodString>;
703
+ format: z.ZodOptional<z.ZodString>;
704
+ kind: z.ZodLiteral<"artifact-table">;
705
+ rowBound: z.ZodOptional<z.ZodObject<{
706
+ column: z.ZodString;
707
+ count: z.ZodNumber;
708
+ order: z.ZodOptional<z.ZodEnum<{
709
+ asc: "asc";
710
+ desc: "desc";
711
+ }>>;
712
+ }, z.core.$strict>>;
713
+ columns: z.ZodOptional<z.ZodArray<z.ZodString>>;
714
+ columnMeanings: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodEnum<{
715
+ category: "category";
716
+ count: "count";
717
+ effect: "effect";
718
+ identifier: "identifier";
719
+ "p-value": "p-value";
720
+ }>>>;
721
+ columnLabels: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodString>>;
722
+ }, z.core.$strict>;
723
+ statistics: z.ZodOptional<z.ZodArray<z.ZodObject<{
724
+ label: z.ZodString;
725
+ value: z.ZodObject<{
726
+ run: z.ZodOptional<z.ZodString>;
727
+ path: z.ZodString;
728
+ snapshot: z.ZodOptional<z.ZodString>;
729
+ unit: z.ZodOptional<z.ZodString>;
730
+ format: z.ZodOptional<z.ZodString>;
731
+ kind: z.ZodLiteral<"artifact-value">;
732
+ locator: z.ZodObject<{
733
+ column: z.ZodString;
734
+ rowFilter: z.ZodOptional<z.ZodObject<{
735
+ column: z.ZodString;
736
+ op: z.ZodLiteral<"eq">;
737
+ value: z.ZodUnion<readonly [z.ZodString, z.ZodNumber]>;
738
+ }, z.core.$strict>>;
739
+ row: z.ZodOptional<z.ZodNumber>;
740
+ }, z.core.$strict>;
741
+ assert: z.ZodOptional<z.ZodObject<{
742
+ value: z.ZodUnion<readonly [z.ZodString, z.ZodNumber]>;
743
+ tolerance: z.ZodOptional<z.ZodNumber>;
744
+ }, z.core.$strict>>;
745
+ }, z.core.$strict>;
746
+ }, z.core.$strict>>>;
747
+ track: z.ZodOptional<z.ZodObject<{
748
+ start: z.ZodString;
749
+ end: z.ZodString;
750
+ label: z.ZodString;
751
+ length: z.ZodOptional<z.ZodString>;
752
+ binding: z.ZodObject<{
753
+ run: z.ZodOptional<z.ZodString>;
754
+ path: z.ZodString;
755
+ snapshot: z.ZodOptional<z.ZodString>;
756
+ unit: z.ZodOptional<z.ZodString>;
757
+ format: z.ZodOptional<z.ZodString>;
758
+ kind: z.ZodLiteral<"artifact-table">;
759
+ rowBound: z.ZodOptional<z.ZodObject<{
760
+ column: z.ZodString;
761
+ count: z.ZodNumber;
762
+ order: z.ZodOptional<z.ZodEnum<{
763
+ asc: "asc";
764
+ desc: "desc";
765
+ }>>;
766
+ }, z.core.$strict>>;
767
+ columns: z.ZodOptional<z.ZodArray<z.ZodString>>;
768
+ columnMeanings: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodEnum<{
769
+ category: "category";
770
+ count: "count";
771
+ effect: "effect";
772
+ identifier: "identifier";
773
+ "p-value": "p-value";
774
+ }>>>;
775
+ columnLabels: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodString>>;
776
+ }, z.core.$strict>;
777
+ }, z.core.$strict>>;
778
+ trees: z.ZodOptional<z.ZodObject<{
779
+ x: z.ZodOptional<z.ZodObject<{
780
+ parent: z.ZodString;
781
+ child: z.ZodString;
782
+ height: z.ZodString;
783
+ binding: typeof AuthoringTableReferenceSchema;
784
+ }, z.core.$strict>>;
785
+ y: z.ZodOptional<z.ZodObject<{
786
+ parent: z.ZodString;
787
+ child: z.ZodString;
788
+ height: z.ZodString;
789
+ binding: typeof AuthoringTableReferenceSchema;
790
+ }, z.core.$strict>>;
791
+ }, z.core.$strict>>;
814
792
  }, z.core.$strict>, z.ZodObject<{
815
793
  kind: z.ZodLiteral<"figure">;
816
794
  id: z.ZodString;
817
795
  caption: z.ZodOptional<z.ZodString>;
818
796
  binding: z.ZodObject<{
819
- format: z.ZodOptional<z.ZodString>;
820
- kind: z.ZodLiteral<"artifact-file">;
821
- path: z.ZodString;
822
- unit: z.ZodOptional<z.ZodString>;
823
797
  run: z.ZodOptional<z.ZodString>;
798
+ path: z.ZodString;
824
799
  snapshot: z.ZodOptional<z.ZodString>;
800
+ unit: z.ZodOptional<z.ZodString>;
801
+ format: z.ZodOptional<z.ZodString>;
802
+ kind: z.ZodLiteral<"artifact-file">;
825
803
  }, z.core.$strict>;
826
804
  }, z.core.$strict>, z.ZodObject<{
827
805
  kind: z.ZodLiteral<"citation">;
@@ -831,9 +809,9 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
831
809
  format: z.ZodOptional<z.ZodString>;
832
810
  kind: z.ZodLiteral<"citation">;
833
811
  idKind: z.ZodEnum<{
812
+ arxiv: "arxiv";
834
813
  doi: "doi";
835
814
  pmid: "pmid";
836
- arxiv: "arxiv";
837
815
  }>;
838
816
  id: z.ZodString;
839
817
  raw: z.ZodString;
@@ -847,12 +825,12 @@ declare const AUTHORING_ATOM_SCHEMAS: readonly [z.ZodObject<{
847
825
  * The section shape as a plain type. TypeScript cannot infer the block tree through the union cycle, thus
848
826
  * the recursive members carry an explicit type.
849
827
  */
850
- export interface AuthoringSectionBlock {
828
+ export type AuthoringSectionBlock = {
851
829
  kind: "section";
852
830
  id: string;
853
831
  title: string;
854
832
  blocks: AuthoringBlock[];
855
- }
833
+ };
856
834
  /** One block of any kind except a section, as an agent writes it and reads it. */
857
835
  export type AuthoringAtomBlock = z.infer<(typeof AUTHORING_ATOM_SCHEMAS)[number]>;
858
836
  /** One block of any of the eight kinds, as an agent writes it and reads it. */