@inflexa-ai/harness 0.1.1 → 0.3.0

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 (330) hide show
  1. package/README.md +48 -0
  2. package/dist/agents/conversation-agent.d.ts +15 -11
  3. package/dist/agents/conversation-agent.js +31 -34
  4. package/dist/agents/report-builder.js +2 -1
  5. package/dist/agents/sandbox/bulk-transcriptomics-agent.js +1 -1
  6. package/dist/agents/sandbox/cheminformatics-agent.js +1 -19
  7. package/dist/agents/sandbox/chromatin-agent.js +1 -10
  8. package/dist/agents/sandbox/dna-methylation-agent.js +1 -10
  9. package/dist/agents/sandbox/drug-repurposing-agent.js +4 -14
  10. package/dist/agents/sandbox/enrichment-agent.js +1 -10
  11. package/dist/agents/sandbox/ephemeral-executor.js +1 -10
  12. package/dist/agents/sandbox/genomic-variant-agent.js +1 -3
  13. package/dist/agents/sandbox/immune-profiling-agent.js +1 -13
  14. package/dist/agents/sandbox/metabolomics-agent.js +1 -1
  15. package/dist/agents/sandbox/microbiome-agent.js +1 -1
  16. package/dist/agents/sandbox/multi-omics-integration-agent.js +1 -12
  17. package/dist/agents/sandbox/multimodal-sc-agent.js +1 -1
  18. package/dist/agents/sandbox/network-agent.js +1 -10
  19. package/dist/agents/sandbox/pkpd-clinical-response-agent.js +2 -8
  20. package/dist/agents/sandbox/proteomics-agent.js +1 -1
  21. package/dist/agents/sandbox/scientific-executor.js +1 -10
  22. package/dist/agents/sandbox/shared.d.ts +20 -6
  23. package/dist/agents/sandbox/shared.js +50 -39
  24. package/dist/agents/sandbox/single-cell-agent.js +1 -1
  25. package/dist/agents/sandbox/spatial-omics-agent.js +1 -1
  26. package/dist/agents/sandbox/statistical-modeling-agent.js +1 -1
  27. package/dist/agents/sandbox/translational-safety-agent.js +3 -9
  28. package/dist/agents/sandbox/types.d.ts +1 -1
  29. package/dist/agents/system-prompt.d.ts +37 -11
  30. package/dist/agents/system-prompt.js +35 -12
  31. package/dist/app/chat-turn.d.ts +3 -0
  32. package/dist/app/chat-turn.js +3 -1
  33. package/dist/app/data-profile-orientation.d.ts +34 -0
  34. package/dist/app/data-profile-orientation.js +117 -0
  35. package/dist/app/synthesize-run.d.ts +3 -0
  36. package/dist/app/synthesize-run.js +3 -1
  37. package/dist/contracts/schemas/chat-parts.d.ts +9 -9
  38. package/dist/execution/artifact-metadata.d.ts +3 -0
  39. package/dist/execution/artifact-metadata.js +10 -3
  40. package/dist/execution/artifact-registration.d.ts +2 -1
  41. package/dist/execution/artifact-registration.js +8 -2
  42. package/dist/execution/ephemeral-runner.d.ts +16 -0
  43. package/dist/execution/ephemeral-runner.js +31 -5
  44. package/dist/execution/post-step-pipeline.d.ts +3 -0
  45. package/dist/execution/post-step-pipeline.js +24 -4
  46. package/dist/execution/reconcile-manifest.d.ts +7 -0
  47. package/dist/execution/reconcile-manifest.js +19 -5
  48. package/dist/execution/report-runner.d.ts +3 -0
  49. package/dist/execution/report-runner.js +4 -4
  50. package/dist/execution/run-synthesis.js +20 -19
  51. package/dist/execution/step-summary.d.ts +3 -0
  52. package/dist/execution/step-summary.js +6 -3
  53. package/dist/index.d.ts +9 -2
  54. package/dist/index.js +24 -5
  55. package/dist/lib/chrome.d.ts +4 -1
  56. package/dist/lib/chrome.js +10 -7
  57. package/dist/lib/console-logger.d.ts +19 -0
  58. package/dist/lib/console-logger.js +62 -0
  59. package/dist/lib/logger.d.ts +88 -0
  60. package/dist/lib/logger.js +37 -0
  61. package/dist/lib/otel.d.ts +2 -1
  62. package/dist/lib/otel.js +8 -3
  63. package/dist/loop/__fixtures__/scripted-provider.d.ts +2 -2
  64. package/dist/loop/__fixtures__/scripted-provider.js +2 -1
  65. package/dist/loop/metrics.d.ts +33 -1
  66. package/dist/loop/metrics.js +56 -2
  67. package/dist/loop/run-agent.d.ts +13 -1
  68. package/dist/loop/run-agent.js +19 -4
  69. package/dist/memory/card-builders.d.ts +8 -1
  70. package/dist/memory/card-builders.js +20 -3
  71. package/dist/memory/reconstruct-cards.js +4 -3
  72. package/dist/memory/thread-history.d.ts +27 -2
  73. package/dist/memory/thread-history.js +45 -5
  74. package/dist/memory/working-memory.d.ts +93 -10
  75. package/dist/memory/working-memory.js +220 -84
  76. package/dist/prompts/SOUL.d.ts +22 -9
  77. package/dist/prompts/SOUL.js +56 -37
  78. package/dist/prompts/analogical-reasoner.d.ts +1 -1
  79. package/dist/prompts/analogical-reasoner.js +2 -2
  80. package/dist/prompts/briefing.d.ts +100 -0
  81. package/dist/prompts/briefing.js +166 -0
  82. package/dist/prompts/conversation.d.ts +1 -1
  83. package/dist/prompts/conversation.js +94 -440
  84. package/dist/prompts/literature-reviewer.d.ts +1 -1
  85. package/dist/prompts/literature-reviewer.js +10 -10
  86. package/dist/prompts/planner.js +28 -59
  87. package/dist/prompts/report-builder.d.ts +1 -1
  88. package/dist/prompts/report-builder.js +71 -24
  89. package/dist/prompts/sandbox/bulk-transcriptomics-agent.d.ts +1 -1
  90. package/dist/prompts/sandbox/bulk-transcriptomics-agent.js +2 -7
  91. package/dist/prompts/sandbox/cheminformatics-agent.d.ts +1 -1
  92. package/dist/prompts/sandbox/cheminformatics-agent.js +11 -15
  93. package/dist/prompts/sandbox/chromatin-agent.d.ts +1 -1
  94. package/dist/prompts/sandbox/chromatin-agent.js +3 -7
  95. package/dist/prompts/sandbox/data-profiler.d.ts +1 -1
  96. package/dist/prompts/sandbox/data-profiler.js +13 -8
  97. package/dist/prompts/sandbox/dna-methylation-agent.d.ts +1 -1
  98. package/dist/prompts/sandbox/dna-methylation-agent.js +2 -7
  99. package/dist/prompts/sandbox/drug-repurposing-agent.d.ts +1 -1
  100. package/dist/prompts/sandbox/drug-repurposing-agent.js +15 -16
  101. package/dist/prompts/sandbox/enrichment-agent.d.ts +1 -1
  102. package/dist/prompts/sandbox/enrichment-agent.js +2 -9
  103. package/dist/prompts/sandbox/genomic-variant-agent.d.ts +1 -1
  104. package/dist/prompts/sandbox/genomic-variant-agent.js +2 -6
  105. package/dist/prompts/sandbox/immune-profiling-agent.d.ts +1 -1
  106. package/dist/prompts/sandbox/immune-profiling-agent.js +3 -8
  107. package/dist/prompts/sandbox/metabolomics-agent.d.ts +1 -1
  108. package/dist/prompts/sandbox/metabolomics-agent.js +1 -7
  109. package/dist/prompts/sandbox/microbiome-agent.d.ts +1 -1
  110. package/dist/prompts/sandbox/microbiome-agent.js +2 -7
  111. package/dist/prompts/sandbox/multi-omics-integration-agent.d.ts +1 -1
  112. package/dist/prompts/sandbox/multi-omics-integration-agent.js +2 -8
  113. package/dist/prompts/sandbox/multimodal-sc-agent.d.ts +1 -1
  114. package/dist/prompts/sandbox/multimodal-sc-agent.js +2 -7
  115. package/dist/prompts/sandbox/network-agent.d.ts +1 -1
  116. package/dist/prompts/sandbox/network-agent.js +2 -7
  117. package/dist/prompts/sandbox/proteomics-agent.d.ts +1 -1
  118. package/dist/prompts/sandbox/proteomics-agent.js +2 -9
  119. package/dist/prompts/sandbox/single-cell-agent.d.ts +1 -1
  120. package/dist/prompts/sandbox/single-cell-agent.js +2 -9
  121. package/dist/prompts/sandbox/spatial-omics-agent.d.ts +1 -1
  122. package/dist/prompts/sandbox/spatial-omics-agent.js +3 -6
  123. package/dist/prompts/sandbox/statistical-modeling-agent.d.ts +1 -1
  124. package/dist/prompts/sandbox/statistical-modeling-agent.js +2 -7
  125. package/dist/prompts/sandbox/translational-safety-agent.d.ts +1 -1
  126. package/dist/prompts/sandbox/translational-safety-agent.js +13 -14
  127. package/dist/prompts/sandbox-standards.d.ts +22 -14
  128. package/dist/prompts/sandbox-standards.js +91 -71
  129. package/dist/prompts/synthesis-agent.d.ts +1 -1
  130. package/dist/prompts/synthesis-agent.js +33 -131
  131. package/dist/provenance/collector.js +1 -1
  132. package/dist/providers/ai-sdk.js +31 -4
  133. package/dist/providers/prompt-cache.d.ts +74 -0
  134. package/dist/providers/prompt-cache.js +77 -0
  135. package/dist/providers/types.d.ts +33 -0
  136. package/dist/reference-data/catalog.d.ts +131 -0
  137. package/dist/reference-data/catalog.js +348 -0
  138. package/dist/reference-data/receipt.d.ts +41 -0
  139. package/dist/reference-data/receipt.js +40 -0
  140. package/dist/runtime/boot.d.ts +2 -2
  141. package/dist/runtime/boot.js +1 -1
  142. package/dist/runtime/connection-budget.d.ts +2 -2
  143. package/dist/runtime/connection-budget.js +5 -3
  144. package/dist/runtime/dbos.d.ts +7 -7
  145. package/dist/runtime/dbos.js +14 -11
  146. package/dist/runtime/shutdown.d.ts +2 -2
  147. package/dist/runtime/shutdown.js +4 -3
  148. package/dist/sandbox/create-sandbox.d.ts +2 -2
  149. package/dist/sandbox/docker-client.d.ts +2 -2
  150. package/dist/sandbox/docker-client.js +4 -1
  151. package/dist/sandbox/k8s-client.d.ts +3 -0
  152. package/dist/sandbox/k8s-client.js +5 -4
  153. package/dist/sandbox/notification-sweep.d.ts +3 -3
  154. package/dist/sandbox/notification-sweep.js +4 -2
  155. package/dist/sandbox/reaper.d.ts +3 -3
  156. package/dist/sandbox/reaper.js +7 -4
  157. package/dist/sandbox/watchdog.d.ts +3 -3
  158. package/dist/sandbox/watchdog.js +8 -2
  159. package/dist/schemas/data-profile-schemas.js +5 -3
  160. package/dist/schemas/plan-schemas.d.ts +21 -21
  161. package/dist/schemas/plan-schemas.js +9 -3
  162. package/dist/schemas/run-synthesis.d.ts +8 -4
  163. package/dist/schemas/run-synthesis.js +92 -56
  164. package/dist/schemas/validate-plan.js +1 -1
  165. package/dist/schemas/workflow-state.d.ts +7 -1
  166. package/dist/schemas/workflow-state.js +33 -19
  167. package/dist/state/artifacts.d.ts +13 -0
  168. package/dist/state/artifacts.js +27 -0
  169. package/dist/state/data-profile.d.ts +64 -5
  170. package/dist/state/index.d.ts +3 -3
  171. package/dist/state/index.js +1 -1
  172. package/dist/state/init.d.ts +2 -1
  173. package/dist/state/init.js +5 -6
  174. package/dist/tasks/data-profile.d.ts +25 -2
  175. package/dist/tasks/data-profile.js +95 -39
  176. package/dist/tools/bio/chembl.d.ts +38 -0
  177. package/dist/tools/bio/chembl.js +138 -0
  178. package/dist/tools/bio/comptox.d.ts +50 -0
  179. package/dist/tools/bio/comptox.js +149 -0
  180. package/dist/tools/bio/get-impc-ko-profile.js +9 -6
  181. package/dist/tools/bio/index.d.ts +5 -17
  182. package/dist/tools/bio/index.js +5 -17
  183. package/dist/tools/bio/keys.d.ts +14 -9
  184. package/dist/tools/bio/keys.js +16 -16
  185. package/dist/tools/bio/opentargets.d.ts +38 -0
  186. package/dist/tools/bio/opentargets.js +89 -0
  187. package/dist/tools/bio/pubchem.d.ts +29 -0
  188. package/dist/tools/bio/pubchem.js +92 -0
  189. package/dist/tools/bio/pubmed.d.ts +51 -0
  190. package/dist/tools/bio/pubmed.js +100 -0
  191. package/dist/tools/bio/search-bgee-expression.js +12 -6
  192. package/dist/tools/bio/search-clinical-trials.js +16 -5
  193. package/dist/tools/bio/search-dgidb.d.ts +11 -1
  194. package/dist/tools/bio/search-dgidb.js +92 -78
  195. package/dist/tools/bio/search-faers.js +8 -4
  196. package/dist/tools/bio/search-geo-datasets.js +20 -6
  197. package/dist/tools/bio/search-gwas-catalog.d.ts +1 -1
  198. package/dist/tools/bio/search-pharmgkb.js +10 -4
  199. package/dist/tools/display/index.d.ts +1 -0
  200. package/dist/tools/display/index.js +1 -0
  201. package/dist/tools/display/normalize-echart-spec.d.ts +61 -0
  202. package/dist/tools/display/normalize-echart-spec.js +211 -0
  203. package/dist/tools/display/show-user.d.ts +6 -1
  204. package/dist/tools/display/show-user.js +25 -12
  205. package/dist/tools/execute-plan.js +5 -2
  206. package/dist/tools/iterate-report.d.ts +171 -118
  207. package/dist/tools/iterate-report.js +336 -96
  208. package/dist/tools/lib/chembl-client.d.ts +12 -0
  209. package/dist/tools/lib/chembl-client.js +127 -0
  210. package/dist/tools/lib/ctx-ops.d.ts +224 -0
  211. package/dist/tools/lib/ctx-ops.js +450 -0
  212. package/dist/tools/lib/iuphar-client.js +10 -1
  213. package/dist/tools/lib/openfda-client.js +11 -3
  214. package/dist/tools/lib/pathway-client.js +10 -4
  215. package/dist/tools/lib/pubchem-ops.d.ts +74 -0
  216. package/dist/tools/lib/pubchem-ops.js +224 -0
  217. package/dist/tools/memory/update-working-memory.d.ts +45 -7
  218. package/dist/tools/memory/update-working-memory.js +111 -41
  219. package/dist/tools/report/index.d.ts +3 -2
  220. package/dist/tools/report/index.js +3 -2
  221. package/dist/tools/research/generate-analogy-report.js +25 -12
  222. package/dist/tools/research/generate-plan.d.ts +12 -5
  223. package/dist/tools/research/generate-plan.js +168 -37
  224. package/dist/tools/research/index.d.ts +1 -0
  225. package/dist/tools/research/index.js +1 -0
  226. package/dist/tools/research/inspect-data-profile.d.ts +85 -0
  227. package/dist/tools/research/inspect-data-profile.js +161 -0
  228. package/dist/tools/research/literature-reviewer.d.ts +3 -0
  229. package/dist/tools/research/literature-reviewer.js +5 -6
  230. package/dist/tools/sandbox/list-available-packages.d.ts +79 -5
  231. package/dist/tools/sandbox/list-available-packages.js +152 -10
  232. package/dist/tools/sandbox/list-available-refs.d.ts +141 -5
  233. package/dist/tools/sandbox/list-available-refs.js +647 -134
  234. package/dist/tools/sandbox/report-blocker.d.ts +39 -9
  235. package/dist/tools/sandbox/report-blocker.js +43 -20
  236. package/dist/tools/workspace/execute-command.d.ts +3 -0
  237. package/dist/tools/workspace/execute-command.js +3 -1
  238. package/dist/tools/workspace/read-file.js +4 -5
  239. package/dist/tools/workspace/run-exec.d.ts +4 -4
  240. package/dist/tools/workspace/run-exec.js +4 -4
  241. package/dist/tools/workspace/show-file.js +10 -6
  242. package/dist/tools/workspace/show-plan.js +12 -6
  243. package/dist/tools/workspace/workspace-search.d.ts +1 -1
  244. package/dist/tools/workspace/workspace-search.js +11 -5
  245. package/dist/workflows/execute-analysis.d.ts +46 -4
  246. package/dist/workflows/execute-analysis.js +118 -13
  247. package/dist/workflows/execute-target-assessment.d.ts +3 -0
  248. package/dist/workflows/execute-target-assessment.js +19 -15
  249. package/dist/workflows/sandbox-step.d.ts +9 -0
  250. package/dist/workflows/sandbox-step.js +39 -17
  251. package/dist/workflows/target-assessment/lib/citation-validator.js +2 -2
  252. package/dist/workflows/target-assessment/lib/clinical-consequence-annotator.js +2 -1
  253. package/dist/workflows/target-assessment/lib/llm-step.d.ts +3 -0
  254. package/dist/workflows/target-assessment/lib/llm-step.js +3 -1
  255. package/dist/workflows/target-assessment/lib/structured-llm.d.ts +3 -0
  256. package/dist/workflows/target-assessment/lib/structured-llm.js +1 -0
  257. package/dist/workflows/target-assessment/phase5-persist.d.ts +3 -0
  258. package/dist/workflows/target-assessment/phase5-persist.js +8 -3
  259. package/dist/workflows/target-assessment/progress.d.ts +2 -1
  260. package/dist/workflows/target-assessment/progress.js +4 -3
  261. package/dist/workspace/filesystem.js +163 -74
  262. package/dist/workspace/paths.d.ts +2 -2
  263. package/dist/workspace/paths.js +2 -2
  264. package/package.json +95 -96
  265. package/dist/execution/filesystem-artifact-registry.d.ts +0 -57
  266. package/dist/execution/filesystem-artifact-registry.js +0 -92
  267. package/dist/lib/identifiers.d.ts +0 -8
  268. package/dist/lib/identifiers.js +0 -10
  269. package/dist/lib/mime-detect.d.ts +0 -17
  270. package/dist/lib/mime-detect.js +0 -29
  271. package/dist/lib/streamed-download.d.ts +0 -28
  272. package/dist/lib/streamed-download.js +0 -111
  273. package/dist/lib/trace-context.d.ts +0 -11
  274. package/dist/lib/trace-context.js +0 -49
  275. package/dist/providers/llm-capabilities.d.ts +0 -33
  276. package/dist/providers/llm-capabilities.js +0 -58
  277. package/dist/schemas/render-step-prompt.d.ts +0 -32
  278. package/dist/schemas/render-step-prompt.js +0 -76
  279. package/dist/tools/bio/find-approval-precedent.d.ts +0 -32
  280. package/dist/tools/bio/find-approval-precedent.js +0 -72
  281. package/dist/tools/bio/get-article-details.d.ts +0 -11
  282. package/dist/tools/bio/get-article-details.js +0 -20
  283. package/dist/tools/bio/get-article-full-text.d.ts +0 -19
  284. package/dist/tools/bio/get-article-full-text.js +0 -32
  285. package/dist/tools/bio/get-bioactivity.d.ts +0 -11
  286. package/dist/tools/bio/get-bioactivity.js +0 -23
  287. package/dist/tools/bio/get-drug-info.d.ts +0 -9
  288. package/dist/tools/bio/get-drug-info.js +0 -22
  289. package/dist/tools/bio/get-mechanism.d.ts +0 -8
  290. package/dist/tools/bio/get-mechanism.js +0 -18
  291. package/dist/tools/bio/get-pubchem-assays.d.ts +0 -22
  292. package/dist/tools/bio/get-pubchem-assays.js +0 -107
  293. package/dist/tools/bio/get-pubchem-cross-refs.d.ts +0 -15
  294. package/dist/tools/bio/get-pubchem-cross-refs.js +0 -68
  295. package/dist/tools/bio/get-target-safety.d.ts +0 -18
  296. package/dist/tools/bio/get-target-safety.js +0 -26
  297. package/dist/tools/bio/search-compounds.d.ts +0 -22
  298. package/dist/tools/bio/search-compounds.js +0 -160
  299. package/dist/tools/bio/search-ctx-chemical.d.ts +0 -50
  300. package/dist/tools/bio/search-ctx-chemical.js +0 -130
  301. package/dist/tools/bio/search-ctx-exposure.d.ts +0 -55
  302. package/dist/tools/bio/search-ctx-exposure.js +0 -176
  303. package/dist/tools/bio/search-ctx-hazard.d.ts +0 -111
  304. package/dist/tools/bio/search-ctx-hazard.js +0 -178
  305. package/dist/tools/bio/search-opentargets.d.ts +0 -11
  306. package/dist/tools/bio/search-opentargets.js +0 -25
  307. package/dist/tools/bio/search-pubchem-compound.d.ts +0 -26
  308. package/dist/tools/bio/search-pubchem-compound.js +0 -110
  309. package/dist/tools/bio/search-pubmed.d.ts +0 -17
  310. package/dist/tools/bio/search-pubmed.js +0 -31
  311. package/dist/tools/bio/search-targets.d.ts +0 -9
  312. package/dist/tools/bio/search-targets.js +0 -20
  313. package/dist/tools/bio/search-toxcast.d.ts +0 -36
  314. package/dist/tools/bio/search-toxcast.js +0 -141
  315. package/dist/workflows/register-workflows.d.ts +0 -51
  316. package/dist/workflows/register-workflows.js +0 -48
  317. package/dist/workflows/resume-execute-analysis.d.ts +0 -70
  318. package/dist/workflows/resume-execute-analysis.js +0 -80
  319. package/dist/workflows/target-assessment/correction-loop.d.ts +0 -45
  320. package/dist/workflows/target-assessment/correction-loop.js +0 -62
  321. package/dist/workflows/target-assessment/steps/phase0-resolve.d.ts +0 -71
  322. package/dist/workflows/target-assessment/steps/phase0-resolve.js +0 -21
  323. package/dist/workflows/target-assessment/steps/phase1-aggregate.d.ts +0 -1018
  324. package/dist/workflows/target-assessment/steps/phase1-aggregate.js +0 -25
  325. package/dist/workspace/mount-strategy.d.ts +0 -50
  326. package/dist/workspace/mount-strategy.js +0 -67
  327. package/dist/workspace/provenance-collector.d.ts +0 -34
  328. package/dist/workspace/provenance-collector.js +0 -16
  329. package/dist/workspace/workspace-paths.d.ts +0 -26
  330. package/dist/workspace/workspace-paths.js +0 -31
package/dist/workflows/target-assessment/steps/phase1-aggregate.d.ts DELETED
@@ -1,1018 +0,0 @@
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- /**
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- * Phase 1 aggregator — schema definitions retained for downstream
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- * type-checking. The DBOS workflow assembles the Phase-1 bundle inline.
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- */
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- import { z } from "zod";
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- export declare const Phase1AggregateInputSchema: z.ZodObject<{
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- "collector-opentargets": z.ZodDiscriminatedUnion<[z.ZodObject<{
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- coverage: z.ZodLiteral<"available">;
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- data: z.ZodObject<{
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- ensemblId: z.ZodString;
11
- approvedSymbol: z.ZodString;
12
- approvedName: z.ZodString;
13
- tractability: z.ZodNullable<z.ZodObject<{
14
- smallMolecule: z.ZodNullable<z.ZodBoolean>;
15
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16
- otherModalities: z.ZodNullable<z.ZodBoolean>;
17
- }, z.core.$strip>>;
18
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19
- diseaseId: z.ZodString;
20
- diseaseName: z.ZodString;
21
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22
- geneticAssociationScore: z.ZodNullable<z.ZodNumber>;
23
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24
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25
- animalModelScore: z.ZodDefault<z.ZodNullable<z.ZodNumber>>;
26
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27
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28
- }, z.core.$strip>>;
29
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30
- event: z.ZodString;
31
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32
- effects: z.ZodNullable<z.ZodString>;
33
- source: z.ZodString;
34
- }, z.core.$strip>>;
35
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36
- tissueId: z.ZodString;
37
- tissueLabel: z.ZodString;
38
- organSystem: z.ZodNullable<z.ZodString>;
39
- rna: z.ZodNullable<z.ZodObject<{
40
- value: z.ZodNumber;
41
- unit: z.ZodString;
42
- }, z.core.$strip>>;
43
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44
- level: z.ZodNullable<z.ZodNumber>;
45
- }, z.core.$strip>>;
46
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47
- }, z.core.$strip>;
48
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49
- coverage: z.ZodLiteral<"queried_no_data">;
50
- error: z.ZodOptional<z.ZodObject<{
51
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52
- name: z.ZodOptional<z.ZodString>;
53
- stack: z.ZodOptional<z.ZodString>;
54
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55
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56
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57
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59
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- coverage: z.ZodLiteral<"available">;
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62
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63
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65
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66
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67
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68
- moleculeType: z.ZodNullable<z.ZodString>;
69
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70
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71
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72
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73
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78
- stack: z.ZodOptional<z.ZodString>;
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- coverage: z.ZodLiteral<"available">;
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- nctId: z.ZodString;
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- title: z.ZodString;
90
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91
- status: z.ZodString;
92
- phase: z.ZodNullable<z.ZodString>;
93
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94
- primaryPurpose: z.ZodNullable<z.ZodString>;
95
- conditions: z.ZodArray<z.ZodString>;
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97
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98
- name: z.ZodString;
99
- type: z.ZodNullable<z.ZodString>;
100
- description: z.ZodNullable<z.ZodString>;
101
- otherNames: z.ZodArray<z.ZodString>;
102
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103
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104
- startDate: z.ZodNullable<z.ZodString>;
105
- primaryCompletionDate: z.ZodNullable<z.ZodString>;
106
- whyStopped: z.ZodNullable<z.ZodString>;
107
- briefSummary: z.ZodNullable<z.ZodString>;
108
- detailedDescription: z.ZodNullable<z.ZodString>;
109
- sponsor: z.ZodNullable<z.ZodString>;
110
- collection_query: z.ZodOptional<z.ZodString>;
111
- collection_channel: z.ZodOptional<z.ZodEnum<{
112
- class_modulator: "class_modulator";
113
- target_symbol: "target_symbol";
114
- therapeutic_program: "therapeutic_program";
115
- biomarker_context: "biomarker_context";
116
- failed_intervention: "failed_intervention";
117
- }>>;
118
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119
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120
- nctId: z.ZodString;
121
- title: z.ZodString;
122
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123
- status: z.ZodString;
124
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125
- studyType: z.ZodNullable<z.ZodString>;
126
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127
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128
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129
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130
- name: z.ZodString;
131
- type: z.ZodNullable<z.ZodString>;
132
- description: z.ZodNullable<z.ZodString>;
133
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134
- }, z.core.$strip>>;
135
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136
- startDate: z.ZodNullable<z.ZodString>;
137
- primaryCompletionDate: z.ZodNullable<z.ZodString>;
138
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139
- briefSummary: z.ZodNullable<z.ZodString>;
140
- detailedDescription: z.ZodNullable<z.ZodString>;
141
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142
- collection_query: z.ZodOptional<z.ZodString>;
143
- collection_channel: z.ZodOptional<z.ZodEnum<{
144
- class_modulator: "class_modulator";
145
- target_symbol: "target_symbol";
146
- therapeutic_program: "therapeutic_program";
147
- biomarker_context: "biomarker_context";
148
- failed_intervention: "failed_intervention";
149
- }>>;
150
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151
- }, z.core.$strip>;
152
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153
- coverage: z.ZodLiteral<"queried_no_data">;
154
- error: z.ZodOptional<z.ZodObject<{
155
- message: z.ZodString;
156
- name: z.ZodOptional<z.ZodString>;
157
- stack: z.ZodOptional<z.ZodString>;
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159
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161
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162
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163
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164
- coverage: z.ZodLiteral<"available">;
165
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166
- drugProbed: z.ZodString;
167
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168
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169
- reaction: z.ZodString;
170
- count: z.ZodNumber;
171
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172
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173
- totalReports: z.ZodNumber;
174
- fatalCount: z.ZodNumber;
175
- hospitalizationCount: z.ZodNumber;
176
- lifeThreateningCount: z.ZodNumber;
177
- disablingCount: z.ZodNumber;
178
- congenitalAnomalyCount: z.ZodDefault<z.ZodNumber>;
179
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180
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181
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182
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183
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184
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185
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186
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187
- stack: z.ZodOptional<z.ZodString>;
188
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189
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190
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191
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192
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193
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194
- coverage: z.ZodLiteral<"available">;
195
- data: z.ZodObject<{
196
- source: z.ZodEnum<{
197
- gtex: "gtex";
198
- hpa_consensus: "hpa_consensus";
199
- hpa_rna_tissue: "hpa_rna_tissue";
200
- }>;
201
- unit: z.ZodEnum<{
202
- tpm: "tpm";
203
- ntpm: "ntpm";
204
- consensus_normalized: "consensus_normalized";
205
- }>;
206
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207
- tissues: z.ZodArray<z.ZodObject<{
208
- tissueLabel: z.ZodString;
209
- organSystem: z.ZodNullable<z.ZodString>;
210
- value: z.ZodNullable<z.ZodNumber>;
211
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212
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213
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214
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215
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216
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217
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218
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219
- stack: z.ZodOptional<z.ZodString>;
220
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221
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222
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223
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224
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225
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226
- coverage: z.ZodLiteral<"available">;
227
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228
- geneSymbol: z.ZodString;
229
- humanEnsemblId: z.ZodNullable<z.ZodString>;
230
- bySpecies: z.ZodArray<z.ZodObject<{
231
- species: z.ZodString;
232
- taxonId: z.ZodNumber;
233
- ensemblId: z.ZodString;
234
- source: z.ZodString;
235
- unit: z.ZodString;
236
- normalization_notes: z.ZodString;
237
- tissues: z.ZodArray<z.ZodObject<{
238
- tissue: z.ZodString;
239
- rank: z.ZodEnum<{
240
- high: "high";
241
- medium: "medium";
242
- low: "low";
243
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244
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245
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246
- }, z.core.$strip>>;
247
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248
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249
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250
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251
- coverage: z.ZodLiteral<"queried_no_data">;
252
- error: z.ZodOptional<z.ZodObject<{
253
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254
- name: z.ZodOptional<z.ZodString>;
255
- stack: z.ZodOptional<z.ZodString>;
256
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257
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258
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259
- reason: z.ZodOptional<z.ZodString>;
260
- }, z.core.$strip>], "coverage">;
261
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262
- coverage: z.ZodLiteral<"available">;
263
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264
- totalFound: z.ZodNumber;
265
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266
- variationId: z.ZodString;
267
- title: z.ZodString;
268
- clinicalSignificance: z.ZodString;
269
- reviewStatus: z.ZodString;
270
- conditions: z.ZodArray<z.ZodString>;
271
- molecularConsequence: z.ZodString;
272
- accession: z.ZodString;
273
- }, z.core.$strip>>;
274
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275
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276
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277
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278
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279
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280
- stack: z.ZodOptional<z.ZodString>;
281
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282
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283
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284
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285
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286
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287
- coverage: z.ZodLiteral<"available">;
288
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289
- entrezGeneId: z.ZodNullable<z.ZodNumber>;
290
- rows: z.ZodArray<z.ZodObject<{
291
- cancerTypeId: z.ZodString;
292
- cancerTypeName: z.ZodString;
293
- totalSamples: z.ZodNumber;
294
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295
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296
- studies: z.ZodArray<z.ZodString>;
297
- }, z.core.$strip>>;
298
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299
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300
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301
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302
- message: z.ZodString;
303
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304
- stack: z.ZodOptional<z.ZodString>;
305
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306
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307
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308
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309
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310
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311
- coverage: z.ZodLiteral<"available">;
312
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313
- mouseMarkerSymbol: z.ZodNullable<z.ZodString>;
314
- mgiAccessionId: z.ZodNullable<z.ZodString>;
315
- viability: z.ZodNullable<z.ZodEnum<{
316
- lethal_pre_weaning: "lethal_pre_weaning";
317
- subviable: "subviable";
318
- viable: "viable";
319
- }>>;
320
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321
- zygosity: z.ZodString;
322
- parameterStableId: z.ZodString;
323
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324
- id: z.ZodString;
325
- name: z.ZodString;
326
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327
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328
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329
- id: z.ZodString;
330
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331
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332
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333
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334
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335
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336
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337
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338
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339
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340
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341
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342
- stack: z.ZodOptional<z.ZodString>;
343
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344
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345
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346
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347
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348
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349
- coverage: z.ZodLiteral<"available">;
350
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351
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352
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353
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354
- pmid: z.ZodString;
355
- title: z.ZodString;
356
- journal: z.ZodString;
357
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358
- authors: z.ZodString;
359
- }, z.core.$strip>>;
360
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361
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362
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363
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364
- message: z.ZodString;
365
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366
- stack: z.ZodOptional<z.ZodString>;
367
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368
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369
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370
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371
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372
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373
- coverage: z.ZodLiteral<"available">;
374
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375
- pathways: z.ZodArray<z.ZodObject<{
376
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377
- name: z.ZodString;
378
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379
- kegg: "kegg";
380
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381
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382
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383
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384
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385
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386
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387
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388
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389
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390
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391
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392
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393
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394
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395
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396
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397
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398
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399
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400
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401
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402
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403
- partners: z.ZodArray<z.ZodObject<{
404
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405
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406
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407
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408
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409
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410
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411
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412
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413
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414
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415
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416
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417
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418
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419
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420
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421
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422
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423
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424
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425
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426
- primaryTargetGene: z.ZodString;
427
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428
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429
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430
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431
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432
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433
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434
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435
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436
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437
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438
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439
- message: z.ZodString;
440
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441
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442
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443
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444
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445
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446
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447
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448
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449
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450
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451
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452
- name: z.ZodString;
453
- targetSymbol: z.ZodString;
454
- targetUniprot: z.ZodNullable<z.ZodString>;
455
- modality: z.ZodString;
456
- sponsor: z.ZodNullable<z.ZodString>;
457
- mechanism: z.ZodString;
458
- status: z.ZodString;
459
- nctIds: z.ZodArray<z.ZodString>;
460
- pmids: z.ZodArray<z.ZodString>;
461
- evidence: z.ZodArray<z.ZodObject<{
462
- pmid: z.ZodOptional<z.ZodString>;
463
- doi: z.ZodOptional<z.ZodString>;
464
- source: z.ZodString;
465
- predicate: z.ZodOptional<z.ZodString>;
466
- score: z.ZodOptional<z.ZodNumber>;
467
- strength: z.ZodOptional<z.ZodString>;
468
- is_human: z.ZodOptional<z.ZodBoolean>;
469
- is_clinical: z.ZodOptional<z.ZodBoolean>;
470
- excerpt: z.ZodOptional<z.ZodString>;
471
- metadata: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodUnknown>>;
472
- regulatory_reference: z.ZodOptional<z.ZodObject<{
473
- document: z.ZodString;
474
- section: z.ZodOptional<z.ZodString>;
475
- doc_id: z.ZodOptional<z.ZodString>;
476
- doc_url: z.ZodOptional<z.ZodString>;
477
- }, z.core.$strip>>;
478
- }, z.core.$strip>>;
479
- confidence: z.ZodEnum<{
480
- high: "high";
481
- medium: "medium";
482
- low: "low";
483
- }>;
484
- }, z.core.$strip>>;
485
- }, z.core.$strip>;
486
- }, z.core.$strip>, z.ZodObject<{
487
- coverage: z.ZodLiteral<"queried_no_data">;
488
- error: z.ZodOptional<z.ZodObject<{
489
- message: z.ZodString;
490
- name: z.ZodOptional<z.ZodString>;
491
- stack: z.ZodOptional<z.ZodString>;
492
- }, z.core.$strip>>;
493
- }, z.core.$strip>, z.ZodObject<{
494
- coverage: z.ZodLiteral<"not_loaded">;
495
- reason: z.ZodOptional<z.ZodString>;
496
- }, z.core.$strip>], "coverage">;
497
- }, z.core.$strip>;
498
- export declare const phase1OutputSchema: z.ZodObject<{
499
- resolved: z.ZodObject<{
500
- assessmentId: z.ZodString;
501
- goal: z.ZodNullable<z.ZodString>;
502
- canonicalId: z.ZodString;
503
- canonicalOntology: z.ZodEnum<{
504
- ensembl: "ensembl";
505
- hgnc: "hgnc";
506
- }>;
507
- geneSymbol: z.ZodString;
508
- approvedName: z.ZodString;
509
- ids: z.ZodObject<{
510
- hgnc: z.ZodNullable<z.ZodString>;
511
- ensembl: z.ZodNullable<z.ZodString>;
512
- uniprot: z.ZodNullable<z.ZodString>;
513
- chembl: z.ZodNullable<z.ZodString>;
514
- entrez: z.ZodNullable<z.ZodString>;
515
- }, z.core.$strip>;
516
- synonyms: z.ZodArray<z.ZodString>;
517
- proteinSynonyms: z.ZodArray<z.ZodString>;
518
- proteinFamily: z.ZodNullable<z.ZodString>;
519
- resolutionCoverage: z.ZodObject<{
520
- hgnc: z.ZodBoolean;
521
- uniprot: z.ZodBoolean;
522
- ensembl: z.ZodBoolean;
523
- chembl: z.ZodBoolean;
524
- }, z.core.$strip>;
525
- }, z.core.$strip>;
526
- collectors: z.ZodObject<{
527
- opentargets: z.ZodDiscriminatedUnion<[z.ZodObject<{
528
- coverage: z.ZodLiteral<"available">;
529
- data: z.ZodObject<{
530
- ensemblId: z.ZodString;
531
- approvedSymbol: z.ZodString;
532
- approvedName: z.ZodString;
533
- tractability: z.ZodNullable<z.ZodObject<{
534
- smallMolecule: z.ZodNullable<z.ZodBoolean>;
535
- antibody: z.ZodNullable<z.ZodBoolean>;
536
- otherModalities: z.ZodNullable<z.ZodBoolean>;
537
- }, z.core.$strip>>;
538
- associations: z.ZodArray<z.ZodObject<{
539
- diseaseId: z.ZodString;
540
- diseaseName: z.ZodString;
541
- score: z.ZodNumber;
542
- geneticAssociationScore: z.ZodNullable<z.ZodNumber>;
543
- knownDrugScore: z.ZodNullable<z.ZodNumber>;
544
- literatureScore: z.ZodNullable<z.ZodNumber>;
545
- animalModelScore: z.ZodDefault<z.ZodNullable<z.ZodNumber>>;
546
- somaticMutationScore: z.ZodDefault<z.ZodNullable<z.ZodNumber>>;
547
- literaturePmids: z.ZodDefault<z.ZodArray<z.ZodString>>;
548
- }, z.core.$strip>>;
549
- safetyLiabilities: z.ZodArray<z.ZodObject<{
550
- event: z.ZodString;
551
- biosamples: z.ZodArray<z.ZodString>;
552
- effects: z.ZodNullable<z.ZodString>;
553
- source: z.ZodString;
554
- }, z.core.$strip>>;
555
- baselineExpression: z.ZodArray<z.ZodObject<{
556
- tissueId: z.ZodString;
557
- tissueLabel: z.ZodString;
558
- organSystem: z.ZodNullable<z.ZodString>;
559
- rna: z.ZodNullable<z.ZodObject<{
560
- value: z.ZodNumber;
561
- unit: z.ZodString;
562
- }, z.core.$strip>>;
563
- protein: z.ZodNullable<z.ZodObject<{
564
- level: z.ZodNullable<z.ZodNumber>;
565
- }, z.core.$strip>>;
566
- }, z.core.$strip>>;
567
- }, z.core.$strip>;
568
- }, z.core.$strip>, z.ZodObject<{
569
- coverage: z.ZodLiteral<"queried_no_data">;
570
- error: z.ZodOptional<z.ZodObject<{
571
- message: z.ZodString;
572
- name: z.ZodOptional<z.ZodString>;
573
- stack: z.ZodOptional<z.ZodString>;
574
- }, z.core.$strip>>;
575
- }, z.core.$strip>, z.ZodObject<{
576
- coverage: z.ZodLiteral<"not_loaded">;
577
- reason: z.ZodOptional<z.ZodString>;
578
- }, z.core.$strip>], "coverage">;
579
- chemblModulators: z.ZodDiscriminatedUnion<[z.ZodObject<{
580
- coverage: z.ZodLiteral<"available">;
581
- data: z.ZodObject<{
582
- targetChemblId: z.ZodNullable<z.ZodString>;
583
- modulators: z.ZodArray<z.ZodObject<{
584
- moleculeChemblId: z.ZodString;
585
- parentChemblId: z.ZodNullable<z.ZodString>;
586
- preferredName: z.ZodNullable<z.ZodString>;
587
- maxPhase: z.ZodNullable<z.ZodNumber>;
588
- moleculeType: z.ZodNullable<z.ZodString>;
589
- firstApproval: z.ZodNullable<z.ZodNumber>;
590
- evidence_source: z.ZodOptional<z.ZodLiteral<"chembl_activity">>;
591
- }, z.core.$strip>>;
592
- }, z.core.$strip>;
593
- }, z.core.$strip>, z.ZodObject<{
594
- coverage: z.ZodLiteral<"queried_no_data">;
595
- error: z.ZodOptional<z.ZodObject<{
596
- message: z.ZodString;
597
- name: z.ZodOptional<z.ZodString>;
598
- stack: z.ZodOptional<z.ZodString>;
599
- }, z.core.$strip>>;
600
- }, z.core.$strip>, z.ZodObject<{
601
- coverage: z.ZodLiteral<"not_loaded">;
602
- reason: z.ZodOptional<z.ZodString>;
603
- }, z.core.$strip>], "coverage">;
604
- ctgov: z.ZodDiscriminatedUnion<[z.ZodObject<{
605
- coverage: z.ZodLiteral<"available">;
606
- data: z.ZodObject<{
607
- active: z.ZodArray<z.ZodObject<{
608
- nctId: z.ZodString;
609
- title: z.ZodString;
610
- officialTitle: z.ZodNullable<z.ZodString>;
611
- status: z.ZodString;
612
- phase: z.ZodNullable<z.ZodString>;
613
- studyType: z.ZodNullable<z.ZodString>;
614
- primaryPurpose: z.ZodNullable<z.ZodString>;
615
- conditions: z.ZodArray<z.ZodString>;
616
- interventions: z.ZodArray<z.ZodString>;
617
- interventionDetails: z.ZodArray<z.ZodObject<{
618
- name: z.ZodString;
619
- type: z.ZodNullable<z.ZodString>;
620
- description: z.ZodNullable<z.ZodString>;
621
- otherNames: z.ZodArray<z.ZodString>;
622
- }, z.core.$strip>>;
623
- enrollmentCount: z.ZodNullable<z.ZodNumber>;
624
- startDate: z.ZodNullable<z.ZodString>;
625
- primaryCompletionDate: z.ZodNullable<z.ZodString>;
626
- whyStopped: z.ZodNullable<z.ZodString>;
627
- briefSummary: z.ZodNullable<z.ZodString>;
628
- detailedDescription: z.ZodNullable<z.ZodString>;
629
- sponsor: z.ZodNullable<z.ZodString>;
630
- collection_query: z.ZodOptional<z.ZodString>;
631
- collection_channel: z.ZodOptional<z.ZodEnum<{
632
- class_modulator: "class_modulator";
633
- target_symbol: "target_symbol";
634
- therapeutic_program: "therapeutic_program";
635
- biomarker_context: "biomarker_context";
636
- failed_intervention: "failed_intervention";
637
- }>>;
638
- }, z.core.$strip>>;
639
- failed: z.ZodArray<z.ZodObject<{
640
- nctId: z.ZodString;
641
- title: z.ZodString;
642
- officialTitle: z.ZodNullable<z.ZodString>;
643
- status: z.ZodString;
644
- phase: z.ZodNullable<z.ZodString>;
645
- studyType: z.ZodNullable<z.ZodString>;
646
- primaryPurpose: z.ZodNullable<z.ZodString>;
647
- conditions: z.ZodArray<z.ZodString>;
648
- interventions: z.ZodArray<z.ZodString>;
649
- interventionDetails: z.ZodArray<z.ZodObject<{
650
- name: z.ZodString;
651
- type: z.ZodNullable<z.ZodString>;
652
- description: z.ZodNullable<z.ZodString>;
653
- otherNames: z.ZodArray<z.ZodString>;
654
- }, z.core.$strip>>;
655
- enrollmentCount: z.ZodNullable<z.ZodNumber>;
656
- startDate: z.ZodNullable<z.ZodString>;
657
- primaryCompletionDate: z.ZodNullable<z.ZodString>;
658
- whyStopped: z.ZodNullable<z.ZodString>;
659
- briefSummary: z.ZodNullable<z.ZodString>;
660
- detailedDescription: z.ZodNullable<z.ZodString>;
661
- sponsor: z.ZodNullable<z.ZodString>;
662
- collection_query: z.ZodOptional<z.ZodString>;
663
- collection_channel: z.ZodOptional<z.ZodEnum<{
664
- class_modulator: "class_modulator";
665
- target_symbol: "target_symbol";
666
- therapeutic_program: "therapeutic_program";
667
- biomarker_context: "biomarker_context";
668
- failed_intervention: "failed_intervention";
669
- }>>;
670
- }, z.core.$strip>>;
671
- }, z.core.$strip>;
672
- }, z.core.$strip>, z.ZodObject<{
673
- coverage: z.ZodLiteral<"queried_no_data">;
674
- error: z.ZodOptional<z.ZodObject<{
675
- message: z.ZodString;
676
- name: z.ZodOptional<z.ZodString>;
677
- stack: z.ZodOptional<z.ZodString>;
678
- }, z.core.$strip>>;
679
- }, z.core.$strip>, z.ZodObject<{
680
- coverage: z.ZodLiteral<"not_loaded">;
681
- reason: z.ZodOptional<z.ZodString>;
682
- }, z.core.$strip>], "coverage">;
683
- faersByTarget: z.ZodDiscriminatedUnion<[z.ZodObject<{
684
- coverage: z.ZodLiteral<"available">;
685
- data: z.ZodObject<{
686
- drugProbed: z.ZodString;
687
- totalReports: z.ZodNullable<z.ZodNumber>;
688
- topReactions: z.ZodArray<z.ZodObject<{
689
- reaction: z.ZodString;
690
- count: z.ZodNumber;
691
- }, z.core.$strip>>;
692
- seriousness: z.ZodNullable<z.ZodObject<{
693
- totalReports: z.ZodNumber;
694
- fatalCount: z.ZodNumber;
695
- hospitalizationCount: z.ZodNumber;
696
- lifeThreateningCount: z.ZodNumber;
697
- disablingCount: z.ZodNumber;
698
- congenitalAnomalyCount: z.ZodDefault<z.ZodNumber>;
699
- otherSeriousCount: z.ZodDefault<z.ZodNumber>;
700
- }, z.core.$strip>>;
701
- }, z.core.$strip>;
702
- }, z.core.$strip>, z.ZodObject<{
703
- coverage: z.ZodLiteral<"queried_no_data">;
704
- error: z.ZodOptional<z.ZodObject<{
705
- message: z.ZodString;
706
- name: z.ZodOptional<z.ZodString>;
707
- stack: z.ZodOptional<z.ZodString>;
708
- }, z.core.$strip>>;
709
- }, z.core.$strip>, z.ZodObject<{
710
- coverage: z.ZodLiteral<"not_loaded">;
711
- reason: z.ZodOptional<z.ZodString>;
712
- }, z.core.$strip>], "coverage">;
713
- expressionHuman: z.ZodDiscriminatedUnion<[z.ZodObject<{
714
- coverage: z.ZodLiteral<"available">;
715
- data: z.ZodObject<{
716
- source: z.ZodEnum<{
717
- gtex: "gtex";
718
- hpa_consensus: "hpa_consensus";
719
- hpa_rna_tissue: "hpa_rna_tissue";
720
- }>;
721
- unit: z.ZodEnum<{
722
- tpm: "tpm";
723
- ntpm: "ntpm";
724
- consensus_normalized: "consensus_normalized";
725
- }>;
726
- normalization_notes: z.ZodString;
727
- tissues: z.ZodArray<z.ZodObject<{
728
- tissueLabel: z.ZodString;
729
- organSystem: z.ZodNullable<z.ZodString>;
730
- value: z.ZodNullable<z.ZodNumber>;
731
- protein: z.ZodNullable<z.ZodNumber>;
732
- }, z.core.$strip>>;
733
- }, z.core.$strip>;
734
- }, z.core.$strip>, z.ZodObject<{
735
- coverage: z.ZodLiteral<"queried_no_data">;
736
- error: z.ZodOptional<z.ZodObject<{
737
- message: z.ZodString;
738
- name: z.ZodOptional<z.ZodString>;
739
- stack: z.ZodOptional<z.ZodString>;
740
- }, z.core.$strip>>;
741
- }, z.core.$strip>, z.ZodObject<{
742
- coverage: z.ZodLiteral<"not_loaded">;
743
- reason: z.ZodOptional<z.ZodString>;
744
- }, z.core.$strip>], "coverage">;
745
- expressionMultiSpecies: z.ZodDiscriminatedUnion<[z.ZodObject<{
746
- coverage: z.ZodLiteral<"available">;
747
- data: z.ZodObject<{
748
- geneSymbol: z.ZodString;
749
- humanEnsemblId: z.ZodNullable<z.ZodString>;
750
- bySpecies: z.ZodArray<z.ZodObject<{
751
- species: z.ZodString;
752
- taxonId: z.ZodNumber;
753
- ensemblId: z.ZodString;
754
- source: z.ZodString;
755
- unit: z.ZodString;
756
- normalization_notes: z.ZodString;
757
- tissues: z.ZodArray<z.ZodObject<{
758
- tissue: z.ZodString;
759
- rank: z.ZodEnum<{
760
- high: "high";
761
- medium: "medium";
762
- low: "low";
763
- absent: "absent";
764
- }>;
765
- expressionScore: z.ZodNullable<z.ZodNumber>;
766
- }, z.core.$strip>>;
767
- }, z.core.$strip>>;
768
- notFound: z.ZodArray<z.ZodString>;
769
- }, z.core.$strip>;
770
- }, z.core.$strip>, z.ZodObject<{
771
- coverage: z.ZodLiteral<"queried_no_data">;
772
- error: z.ZodOptional<z.ZodObject<{
773
- message: z.ZodString;
774
- name: z.ZodOptional<z.ZodString>;
775
- stack: z.ZodOptional<z.ZodString>;
776
- }, z.core.$strip>>;
777
- }, z.core.$strip>, z.ZodObject<{
778
- coverage: z.ZodLiteral<"not_loaded">;
779
- reason: z.ZodOptional<z.ZodString>;
780
- }, z.core.$strip>], "coverage">;
781
- clinvar: z.ZodDiscriminatedUnion<[z.ZodObject<{
782
- coverage: z.ZodLiteral<"available">;
783
- data: z.ZodObject<{
784
- totalFound: z.ZodNumber;
785
- variants: z.ZodArray<z.ZodObject<{
786
- variationId: z.ZodString;
787
- title: z.ZodString;
788
- clinicalSignificance: z.ZodString;
789
- reviewStatus: z.ZodString;
790
- conditions: z.ZodArray<z.ZodString>;
791
- molecularConsequence: z.ZodString;
792
- accession: z.ZodString;
793
- }, z.core.$strip>>;
794
- }, z.core.$strip>;
795
- }, z.core.$strip>, z.ZodObject<{
796
- coverage: z.ZodLiteral<"queried_no_data">;
797
- error: z.ZodOptional<z.ZodObject<{
798
- message: z.ZodString;
799
- name: z.ZodOptional<z.ZodString>;
800
- stack: z.ZodOptional<z.ZodString>;
801
- }, z.core.$strip>>;
802
- }, z.core.$strip>, z.ZodObject<{
803
- coverage: z.ZodLiteral<"not_loaded">;
804
- reason: z.ZodOptional<z.ZodString>;
805
- }, z.core.$strip>], "coverage">;
806
- cbioportal: z.ZodDiscriminatedUnion<[z.ZodObject<{
807
- coverage: z.ZodLiteral<"available">;
808
- data: z.ZodObject<{
809
- entrezGeneId: z.ZodNullable<z.ZodNumber>;
810
- rows: z.ZodArray<z.ZodObject<{
811
- cancerTypeId: z.ZodString;
812
- cancerTypeName: z.ZodString;
813
- totalSamples: z.ZodNumber;
814
- mutatedSamples: z.ZodNumber;
815
- frequency: z.ZodNumber;
816
- studies: z.ZodArray<z.ZodString>;
817
- }, z.core.$strip>>;
818
- }, z.core.$strip>;
819
- }, z.core.$strip>, z.ZodObject<{
820
- coverage: z.ZodLiteral<"queried_no_data">;
821
- error: z.ZodOptional<z.ZodObject<{
822
- message: z.ZodString;
823
- name: z.ZodOptional<z.ZodString>;
824
- stack: z.ZodOptional<z.ZodString>;
825
- }, z.core.$strip>>;
826
- }, z.core.$strip>, z.ZodObject<{
827
- coverage: z.ZodLiteral<"not_loaded">;
828
- reason: z.ZodOptional<z.ZodString>;
829
- }, z.core.$strip>], "coverage">;
830
- impc: z.ZodDiscriminatedUnion<[z.ZodObject<{
831
- coverage: z.ZodLiteral<"available">;
832
- data: z.ZodObject<{
833
- mouseMarkerSymbol: z.ZodNullable<z.ZodString>;
834
- mgiAccessionId: z.ZodNullable<z.ZodString>;
835
- viability: z.ZodNullable<z.ZodEnum<{
836
- lethal_pre_weaning: "lethal_pre_weaning";
837
- subviable: "subviable";
838
- viable: "viable";
839
- }>>;
840
- viabilityCalls: z.ZodArray<z.ZodObject<{
841
- zygosity: z.ZodString;
842
- parameterStableId: z.ZodString;
843
- mpTerm: z.ZodNullable<z.ZodObject<{
844
- id: z.ZodString;
845
- name: z.ZodString;
846
- }, z.core.$strip>>;
847
- }, z.core.$strip>>;
848
- mpTerms: z.ZodArray<z.ZodObject<{
849
- id: z.ZodString;
850
- term: z.ZodString;
851
- bestPValue: z.ZodNullable<z.ZodNumber>;
852
- }, z.core.$strip>>;
853
- organSystems: z.ZodArray<z.ZodString>;
854
- sexDimorphic: z.ZodBoolean;
855
- phenotypeCount: z.ZodNumber;
856
- }, z.core.$strip>;
857
- }, z.core.$strip>, z.ZodObject<{
858
- coverage: z.ZodLiteral<"queried_no_data">;
859
- error: z.ZodOptional<z.ZodObject<{
860
- message: z.ZodString;
861
- name: z.ZodOptional<z.ZodString>;
862
- stack: z.ZodOptional<z.ZodString>;
863
- }, z.core.$strip>>;
864
- }, z.core.$strip>, z.ZodObject<{
865
- coverage: z.ZodLiteral<"not_loaded">;
866
- reason: z.ZodOptional<z.ZodString>;
867
- }, z.core.$strip>], "coverage">;
868
- pubmedIndex: z.ZodDiscriminatedUnion<[z.ZodObject<{
869
- coverage: z.ZodLiteral<"available">;
870
- data: z.ZodObject<{
871
- totalFound: z.ZodNumber;
872
- topPmids: z.ZodArray<z.ZodString>;
873
- results: z.ZodArray<z.ZodObject<{
874
- pmid: z.ZodString;
875
- title: z.ZodString;
876
- journal: z.ZodString;
877
- year: z.ZodString;
878
- authors: z.ZodString;
879
- }, z.core.$strip>>;
880
- }, z.core.$strip>;
881
- }, z.core.$strip>, z.ZodObject<{
882
- coverage: z.ZodLiteral<"queried_no_data">;
883
- error: z.ZodOptional<z.ZodObject<{
884
- message: z.ZodString;
885
- name: z.ZodOptional<z.ZodString>;
886
- stack: z.ZodOptional<z.ZodString>;
887
- }, z.core.$strip>>;
888
- }, z.core.$strip>, z.ZodObject<{
889
- coverage: z.ZodLiteral<"not_loaded">;
890
- reason: z.ZodOptional<z.ZodString>;
891
- }, z.core.$strip>], "coverage">;
892
- pathways: z.ZodDiscriminatedUnion<[z.ZodObject<{
893
- coverage: z.ZodLiteral<"available">;
894
- data: z.ZodObject<{
895
- pathways: z.ZodArray<z.ZodObject<{
896
- id: z.ZodString;
897
- name: z.ZodString;
898
- source: z.ZodEnum<{
899
- kegg: "kegg";
900
- reactome: "reactome";
901
- }>;
902
- url: z.ZodOptional<z.ZodString>;
903
- entity_uniprots: z.ZodOptional<z.ZodArray<z.ZodString>>;
904
- metadata: z.ZodOptional<z.ZodObject<{
905
- species_present: z.ZodOptional<z.ZodArray<z.ZodString>>;
906
- }, z.core.$strip>>;
907
- }, z.core.$strip>>;
908
- }, z.core.$strip>;
909
- }, z.core.$strip>, z.ZodObject<{
910
- coverage: z.ZodLiteral<"queried_no_data">;
911
- error: z.ZodOptional<z.ZodObject<{
912
- message: z.ZodString;
913
- name: z.ZodOptional<z.ZodString>;
914
- stack: z.ZodOptional<z.ZodString>;
915
- }, z.core.$strip>>;
916
- }, z.core.$strip>, z.ZodObject<{
917
- coverage: z.ZodLiteral<"not_loaded">;
918
- reason: z.ZodOptional<z.ZodString>;
919
- }, z.core.$strip>], "coverage">;
920
- stringPpi: z.ZodDiscriminatedUnion<[z.ZodObject<{
921
- coverage: z.ZodLiteral<"available">;
922
- data: z.ZodObject<{
923
- partners: z.ZodArray<z.ZodObject<{
924
- proteinA: z.ZodString;
925
- proteinB: z.ZodString;
926
- score: z.ZodNumber;
927
- experimentalScore: z.ZodOptional<z.ZodNumber>;
928
- databaseScore: z.ZodOptional<z.ZodNumber>;
929
- textminingScore: z.ZodOptional<z.ZodNumber>;
930
- }, z.core.$strip>>;
931
- }, z.core.$strip>;
932
- }, z.core.$strip>, z.ZodObject<{
933
- coverage: z.ZodLiteral<"queried_no_data">;
934
- error: z.ZodOptional<z.ZodObject<{
935
- message: z.ZodString;
936
- name: z.ZodOptional<z.ZodString>;
937
- stack: z.ZodOptional<z.ZodString>;
938
- }, z.core.$strip>>;
939
- }, z.core.$strip>, z.ZodObject<{
940
- coverage: z.ZodLiteral<"not_loaded">;
941
- reason: z.ZodOptional<z.ZodString>;
942
- }, z.core.$strip>], "coverage">;
943
- familyComplexes: z.ZodDiscriminatedUnion<[z.ZodObject<{
944
- coverage: z.ZodLiteral<"available">;
945
- data: z.ZodObject<{
946
- primaryTargetGene: z.ZodString;
947
- primaryTargetUniprot: z.ZodNullable<z.ZodString>;
948
- accessoryProteinNames: z.ZodArray<z.ZodString>;
949
- complexes: z.ZodArray<z.ZodObject<{
950
- complexName: z.ZodString;
951
- complexId: z.ZodNullable<z.ZodNumber>;
952
- accessoryNames: z.ZodArray<z.ZodString>;
953
- subunitNames: z.ZodArray<z.ZodString>;
954
- }, z.core.$strip>>;
955
- }, z.core.$strip>;
956
- }, z.core.$strip>, z.ZodObject<{
957
- coverage: z.ZodLiteral<"queried_no_data">;
958
- error: z.ZodOptional<z.ZodObject<{
959
- message: z.ZodString;
960
- name: z.ZodOptional<z.ZodString>;
961
- stack: z.ZodOptional<z.ZodString>;
962
- }, z.core.$strip>>;
963
- }, z.core.$strip>, z.ZodObject<{
964
- coverage: z.ZodLiteral<"not_loaded">;
965
- reason: z.ZodOptional<z.ZodString>;
966
- }, z.core.$strip>], "coverage">;
967
- therapeuticPrograms: z.ZodOptional<z.ZodDiscriminatedUnion<[z.ZodObject<{
968
- coverage: z.ZodLiteral<"available">;
969
- data: z.ZodObject<{
970
- programs: z.ZodArray<z.ZodObject<{
971
- programId: z.ZodString;
972
- name: z.ZodString;
973
- targetSymbol: z.ZodString;
974
- targetUniprot: z.ZodNullable<z.ZodString>;
975
- modality: z.ZodString;
976
- sponsor: z.ZodNullable<z.ZodString>;
977
- mechanism: z.ZodString;
978
- status: z.ZodString;
979
- nctIds: z.ZodArray<z.ZodString>;
980
- pmids: z.ZodArray<z.ZodString>;
981
- evidence: z.ZodArray<z.ZodObject<{
982
- pmid: z.ZodOptional<z.ZodString>;
983
- doi: z.ZodOptional<z.ZodString>;
984
- source: z.ZodString;
985
- predicate: z.ZodOptional<z.ZodString>;
986
- score: z.ZodOptional<z.ZodNumber>;
987
- strength: z.ZodOptional<z.ZodString>;
988
- is_human: z.ZodOptional<z.ZodBoolean>;
989
- is_clinical: z.ZodOptional<z.ZodBoolean>;
990
- excerpt: z.ZodOptional<z.ZodString>;
991
- metadata: z.ZodOptional<z.ZodRecord<z.ZodString, z.ZodUnknown>>;
992
- regulatory_reference: z.ZodOptional<z.ZodObject<{
993
- document: z.ZodString;
994
- section: z.ZodOptional<z.ZodString>;
995
- doc_id: z.ZodOptional<z.ZodString>;
996
- doc_url: z.ZodOptional<z.ZodString>;
997
- }, z.core.$strip>>;
998
- }, z.core.$strip>>;
999
- confidence: z.ZodEnum<{
1000
- high: "high";
1001
- medium: "medium";
1002
- low: "low";
1003
- }>;
1004
- }, z.core.$strip>>;
1005
- }, z.core.$strip>;
1006
- }, z.core.$strip>, z.ZodObject<{
1007
- coverage: z.ZodLiteral<"queried_no_data">;
1008
- error: z.ZodOptional<z.ZodObject<{
1009
- message: z.ZodString;
1010
- name: z.ZodOptional<z.ZodString>;
1011
- stack: z.ZodOptional<z.ZodString>;
1012
- }, z.core.$strip>>;
1013
- }, z.core.$strip>, z.ZodObject<{
1014
- coverage: z.ZodLiteral<"not_loaded">;
1015
- reason: z.ZodOptional<z.ZodString>;
1016
- }, z.core.$strip>], "coverage">>;
1017
- }, z.core.$strip>;
1018
- }, z.core.$strip>;