@inflexa-ai/harness 0.29.0 → 0.30.1

package/dist/agents/conversation-agent.js

@@ -27,7 +27,7 @@ import { composeSystemPrompt } from "./system-prompt.js";
 import { searchGeneTool, lookupAnnotationTool, searchInteractionsTool, chemblTool, pubchemTool, openTargetsTool, searchFaersTool, searchClinicalTrialsTool, searchGeoDatasetsTool, genePreclinicalProfileTool, targetSafetyTool, } from "../tools/bio/index.js";
 import { createNcbiTools, createChemDbTools } from "../tools/bio/keys.js";
 // Dependency-bearing tool factories.
-import { createGeneratePlanTool, createLiteratureReviewerTool, createInspectRunTool, createInspectDataProfileTool, createGenerateAnalogyReportTool, } from "../tools/research/index.js";
+import { createGeneratePlanTool, createInspectRunTool, createInspectDataProfileTool, createGenerateAnalogyReportTool, createSearchSemanticScholarTool, searchArxivTool, } from "../tools/research/index.js";
 import { createFileStatTool, createGrepTool, createListFilesTool, createReadFileTool, createShowPlanTool, createWorkspaceSearchTool, showFileTool, } from "../tools/workspace/index.js";
 import { showUserTool } from "../tools/display/index.js";
 import { createUpdateWorkingMemoryTool } from "../tools/memory/index.js";
@@ -39,7 +39,7 @@ import { createResolveCitationTool } from "../tools/research/resolve-citation.js
 /** Canonical agent id — the single source of truth. */
 export const CONVERSATION_AGENT_ID = "conversation-agent";
 /** Runaway guard — heavy tool-driving turns need generous headroom. */
-const CONVERSATION_MAX_ITERATIONS = 50;
+const CONVERSATION_MAX_ITERATIONS = 200;
 /** Build the conversation `AgentDefinition` with every tool fully dep-bound. */
 export function createConversationAgent(deps) {
     const { provider, pool, embedding, workspaceFs, model, utilityProvider, utilityModel, executeAnalysisWorkflow, runAuthorizer, runLauncher, bioKeys, chrome, resourcePolicy, hostTools, refStorePath, packagesFile, usageRecorder, citationResolver, } = deps;
@@ -57,6 +57,10 @@ export function createConversationAgent(deps) {
         ncbi.pubmed,
         // Verification of one caller-supplied citation (distinct from discovery).
         createResolveCitationTool(citationResolver),
+        // Literature outside PubMed. A question about a method, a model or a
+        // preprint has no MEDLINE record, thus PubMed alone cannot answer it.
+        createSearchSemanticScholarTool({ ...(bioKeys.semanticScholar === undefined ? {} : { apiKey: bioKeys.semanticScholar }) }),
+        searchArxivTool,
         // ChEMBL (compounds / drug / mechanism / bioactivity / targets behind one action).
         chemblTool,
         // PubChem (compound / crossrefs / assays behind one action).
@@ -95,6 +99,7 @@ export function createConversationAgent(deps) {
             pool,
             resourcePolicy,
             usageRecorder,
+            bioKeys,
             ...(refStorePath ? { refStorePath } : {}),
             ...(packagesFile ? { packagesFile } : {}),
             ...(deps.logger ? { logger: deps.logger } : {}),
@@ -123,8 +128,6 @@ export function createConversationAgent(deps) {
         showUserTool,
         createShowPlanTool(pool),
         showFileTool,
-        // Batch literature/biology research (sub-agent as a loop-driving tool).
-        createLiteratureReviewerTool({ provider, model, bioKeys, citationResolver, usageRecorder }),
         // Cross-domain analogy generation (sub-agent as a loop-driving tool).
         createGenerateAnalogyReportTool({ provider, model, bioKeys, usageRecorder }),
         // Workspace semantic search + raw read/grep over the read seam.

package/dist/agents/report-session-agent.js

@@ -35,7 +35,7 @@ export const REPORT_SESSION_AGENT_ID = "report-session";
  * look, record — drives more small tool calls than a conversation turn, thus it
  * gets the headroom of the report runner (REPORT_AGENT_MAX_STEPS).
  */
-const REPORT_SESSION_MAX_ITERATIONS = 75;
+const REPORT_SESSION_MAX_ITERATIONS = 200;
 /** Build the report `AgentDefinition` with every tool bound to its deps. */
 export function createReportSessionAgent(deps) {
     const { model, pool, embedding, workspaceFs, gateway, resolveWorkspaceRoot, store, threads, chrome, eyes, makeResolver, resolvePageAsset, logger } = deps;

package/dist/agents/sandbox/data-profiler.js

@@ -15,7 +15,6 @@ export const meta = {
     // differently. Declared rather than bolted on, so the resolved roster stays
     // `meta.tools` plus the always-on set.
     tools: [...BASE_SANDBOX_TOOLS, "scanInputs"],
-    defaultMaxSteps: 85,
     plannable: false,
 };
 export function createDataProfilerAgent(deps) {

package/dist/agents/sandbox/immune-profiling-agent.js

@@ -26,7 +26,9 @@ export const meta = {
     // `single-cell` carries the scirpy reference, which is the route from 10x
     // VDJ / AIRR files to called clonotypes — the input every repertoire metric
     // in `immune-profiling` assumes it already has.
-    skills: ["immune-profiling", "single-cell", "shared/omics-general"],
+    // `statistical-modeling` carries the survival-cutpoint correction and the
+    // multiplicity rules that the immune-clinical correlation work demands.
+    skills: ["immune-profiling", "single-cell", "statistical-modeling", "shared/omics-general"],
     tools: [...BASE_SANDBOX_TOOLS, "pubmed", "searchGene", "lookupAnnotation", "searchInteractions", "searchGeoDatasets", "opentargets"],
 };
 export function createImmuneProfilingAgent(deps) {

package/dist/agents/sandbox/network-agent.js

@@ -9,7 +9,6 @@ export const meta = {
     suitableFor: ["expression-matrices", "correlation-matrices", "general-omics"],
     skills: ["network-regulatory", "shared/omics-general"],
     tools: [...BASE_SANDBOX_TOOLS, "pubmed", "searchGene", "lookupAnnotation", "searchInteractions"],
-    defaultMaxSteps: 35,
 };
 export function createNetworkAgent(deps) {
     return createSandboxAgent(deps, meta, networkAgentPrompt);

package/dist/agents/sandbox/types.d.ts

@@ -31,4 +31,4 @@ export interface AgentMeta {
     readonly plannable?: boolean;
 }
 /** Default runaway-guard for sandbox agents. */
-export declare const SANDBOX_AGENT_DEFAULT_MAX_ITERATIONS = 50;
+export declare const SANDBOX_AGENT_DEFAULT_MAX_ITERATIONS = 200;

package/dist/agents/sandbox/types.js

@@ -12,4 +12,4 @@
  * in the tool's `perSource` report; the rest of the call still answers.
  */
 /** Default runaway-guard for sandbox agents. */
-export const SANDBOX_AGENT_DEFAULT_MAX_ITERATIONS = 50;
+export const SANDBOX_AGENT_DEFAULT_MAX_ITERATIONS = 200;

package/dist/config/resource-limits.d.ts

@@ -46,7 +46,7 @@ export type ResourcePolicy = z.infer<typeof ResourcePolicySchema>;
 /** Default LLM-turn budget for a sandbox agent step. Covers simple,
  *  standard, and complex analyses — extra headroom on simple steps is
  *  cheaper than truncating complex ones. */
-export declare const DEFAULT_SANDBOX_MAX_STEPS = 75;
+export declare const DEFAULT_SANDBOX_MAX_STEPS = 200;
 export declare class ResourceLimitsConfigError extends Error {
     constructor(message: string);
 }

package/dist/config/resource-limits.js

@@ -33,7 +33,7 @@ export const ResourcePolicySchema = z.object({
 /** Default LLM-turn budget for a sandbox agent step. Covers simple,
  *  standard, and complex analyses — extra headroom on simple steps is
  *  cheaper than truncating complex ones. */
-export const DEFAULT_SANDBOX_MAX_STEPS = 75;
+export const DEFAULT_SANDBOX_MAX_STEPS = 200;
 // ── Error ───────────────────────────────────────────────────────────
 export class ResourceLimitsConfigError extends Error {
     constructor(message) {

package/dist/contracts/schemas/chat-parts.d.ts

@@ -305,9 +305,9 @@ export declare const StepBlockedPartSchema: z.ZodObject<{
 export declare const RunCompletedFindingSchema: z.ZodObject<{
     title: z.ZodString;
     confidence: z.ZodEnum<{
-        high: "high";
-        medium: "medium";
         low: "low";
+        medium: "medium";
+        high: "high";
     }>;
 }, z.core.$strip>;
 export declare const RunCompletedPartSchema: z.ZodObject<{
@@ -323,9 +323,9 @@ export declare const RunCompletedPartSchema: z.ZodObject<{
     findings: z.ZodArray<z.ZodObject<{
         title: z.ZodString;
         confidence: z.ZodEnum<{
-            high: "high";
-            medium: "medium";
             low: "low";
+            medium: "medium";
+            high: "high";
         }>;
     }, z.core.$strip>>;
     note: z.ZodOptional<z.ZodString>;
@@ -342,9 +342,9 @@ export declare const SynthesizedFindingSchema: z.ZodObject<{
     title: z.ZodString;
     description: z.ZodString;
     confidence: z.ZodEnum<{
-        high: "high";
-        medium: "medium";
         low: "low";
+        medium: "medium";
+        high: "high";
     }>;
     noveltyStatus: z.ZodEnum<{
         expected: "expected";
@@ -374,9 +374,9 @@ export declare const RunSynthesisPartSchema: z.ZodObject<{
         title: z.ZodString;
         description: z.ZodString;
         confidence: z.ZodEnum<{
-            high: "high";
-            medium: "medium";
             low: "low";
+            medium: "medium";
+            high: "high";
         }>;
         noveltyStatus: z.ZodEnum<{
             expected: "expected";
@@ -647,9 +647,9 @@ export declare const CortexChatPartSchema: z.ZodDiscriminatedUnion<[z.ZodObject<
         title: z.ZodString;
         description: z.ZodString;
         confidence: z.ZodEnum<{
-            high: "high";
-            medium: "medium";
             low: "low";
+            medium: "medium";
+            high: "high";
         }>;
         noveltyStatus: z.ZodEnum<{
             expected: "expected";
@@ -707,9 +707,9 @@ export declare const CortexChatPartSchema: z.ZodDiscriminatedUnion<[z.ZodObject<
     findings: z.ZodArray<z.ZodObject<{
         title: z.ZodString;
         confidence: z.ZodEnum<{
-            high: "high";
-            medium: "medium";
             low: "low";
+            medium: "medium";
+            high: "high";
         }>;
     }, z.core.$strip>>;
     note: z.ZodOptional<z.ZodString>;

package/dist/contracts/severity.d.ts

@@ -8,8 +8,8 @@
 import { z } from "zod";
 export declare const SEVERITIES: readonly ["high", "medium", "low"];
 export declare const SeveritySchema: z.ZodEnum<{
-    high: "high";
-    medium: "medium";
     low: "low";
+    medium: "medium";
+    high: "high";
 }>;
 export type Severity = (typeof SEVERITIES)[number];

package/dist/contracts/target-dossier.d.ts

@@ -611,9 +611,9 @@ export declare const ClinicalTrialRowSchema: z.ZodObject<{
     start_date: z.ZodNullable<z.ZodString>;
     completion_date: z.ZodNullable<z.ZodString>;
     match_confidence: z.ZodEnum<{
-        high: "high";
-        medium: "medium";
         low: "low";
+        medium: "medium";
+        high: "high";
         off_target: "off_target";
     }>;
     attribution: z.ZodObject<{
@@ -821,9 +821,9 @@ export declare const ClinicalDevelopmentSchema: z.ZodObject<{
                 start_date: z.ZodNullable<z.ZodString>;
                 completion_date: z.ZodNullable<z.ZodString>;
                 match_confidence: z.ZodEnum<{
-                    high: "high";
-                    medium: "medium";
                     low: "low";
+                    medium: "medium";
+                    high: "high";
                     off_target: "off_target";
                 }>;
                 attribution: z.ZodObject<{
@@ -878,9 +878,9 @@ export declare const ClinicalDevelopmentSchema: z.ZodObject<{
                 start_date: z.ZodNullable<z.ZodString>;
                 completion_date: z.ZodNullable<z.ZodString>;
                 match_confidence: z.ZodEnum<{
-                    high: "high";
-                    medium: "medium";
                     low: "low";
+                    medium: "medium";
+                    high: "high";
                     off_target: "off_target";
                 }>;
                 attribution: z.ZodObject<{
@@ -1231,9 +1231,9 @@ export declare const OrganRiskRowSchema: z.ZodObject<{
         oncology: "oncology";
     }>;
     risk_level: z.ZodEnum<{
-        high: "high";
-        medium: "medium";
         low: "low";
+        medium: "medium";
+        high: "high";
     }>;
     signal_type_count: z.ZodNumber;
     signals: z.ZodObject<{
@@ -1759,9 +1759,9 @@ export declare const SafetyFlagSchema: z.ZodObject<{
     trail: z.ZodString;
     mechanism_hypothesis: z.ZodOptional<z.ZodNullable<z.ZodString>>;
     severity: z.ZodEnum<{
-        high: "high";
-        medium: "medium";
         low: "low";
+        medium: "medium";
+        high: "high";
     }>;
     support: z.ZodDiscriminatedUnion<[z.ZodObject<{
         state: z.ZodLiteral<"scored">;
@@ -2008,9 +2008,9 @@ export declare const SafetyProfileSchema: z.ZodObject<{
                     oncology: "oncology";
                 }>;
                 risk_level: z.ZodEnum<{
-                    high: "high";
-                    medium: "medium";
                     low: "low";
+                    medium: "medium";
+                    high: "high";
                 }>;
                 signal_type_count: z.ZodNumber;
                 signals: z.ZodObject<{
@@ -2562,9 +2562,9 @@ export declare const SafetyProfileSchema: z.ZodObject<{
                 trail: z.ZodString;
                 mechanism_hypothesis: z.ZodOptional<z.ZodNullable<z.ZodString>>;
                 severity: z.ZodEnum<{
-                    high: "high";
-                    medium: "medium";
                     low: "low";
+                    medium: "medium";
+                    high: "high";
                 }>;
                 support: z.ZodDiscriminatedUnion<[z.ZodObject<{
                     state: z.ZodLiteral<"scored">;
@@ -4112,11 +4112,11 @@ export declare const ExpressionHeatmapCellSchema: z.ZodObject<{
         dog: "dog";
     }>;
     rank: z.ZodEnum<{
+        low: "low";
+        medium: "medium";
+        high: "high";
         no_data: "no_data";
         absent: "absent";
-        high: "high";
-        medium: "medium";
-        low: "low";
         not_loaded: "not_loaded";
     }>;
 }, z.core.$strip>;
@@ -4131,11 +4131,11 @@ export declare const ExpressionHeatmapSchema: z.ZodObject<{
             dog: "dog";
         }>;
         rank: z.ZodEnum<{
+            low: "low";
+            medium: "medium";
+            high: "high";
             no_data: "no_data";
             absent: "absent";
-            high: "high";
-            medium: "medium";
-            low: "low";
             not_loaded: "not_loaded";
         }>;
     }, z.core.$strip>>;
@@ -4267,11 +4267,11 @@ export declare const PreclinicalProfileSchema: z.ZodObject<{
                     dog: "dog";
                 }>;
                 rank: z.ZodEnum<{
+                    low: "low";
+                    medium: "medium";
+                    high: "high";
                     no_data: "no_data";
                     absent: "absent";
-                    high: "high";
-                    medium: "medium";
-                    low: "low";
                     not_loaded: "not_loaded";
                 }>;
             }, z.core.$strip>>;
@@ -4631,9 +4631,9 @@ export declare const DiscoveryTrialRowSchema: z.ZodObject<{
     start_date: z.ZodOptional<z.ZodString>;
     completion_date: z.ZodOptional<z.ZodString>;
     match_confidence: z.ZodEnum<{
-        high: "high";
-        medium: "medium";
         low: "low";
+        medium: "medium";
+        high: "high";
     }>;
     relevance_basis: z.ZodDiscriminatedUnion<[z.ZodObject<{
         kind: z.ZodLiteral<"drug_in_class_match">;
@@ -4703,9 +4703,9 @@ export declare const DiscoveryTrialsSchema: z.ZodDiscriminatedUnion<[z.ZodObject
             start_date: z.ZodOptional<z.ZodString>;
             completion_date: z.ZodOptional<z.ZodString>;
             match_confidence: z.ZodEnum<{
-                high: "high";
-                medium: "medium";
                 low: "low";
+                medium: "medium";
+                high: "high";
             }>;
             relevance_basis: z.ZodDiscriminatedUnion<[z.ZodObject<{
                 kind: z.ZodLiteral<"drug_in_class_match">;
@@ -4772,9 +4772,9 @@ export declare const DiscoveryTrialsSchema: z.ZodDiscriminatedUnion<[z.ZodObject
             start_date: z.ZodOptional<z.ZodString>;
             completion_date: z.ZodOptional<z.ZodString>;
             match_confidence: z.ZodEnum<{
-                high: "high";
-                medium: "medium";
                 low: "low";
+                medium: "medium";
+                high: "high";
             }>;
             relevance_basis: z.ZodDiscriminatedUnion<[z.ZodObject<{
                 kind: z.ZodLiteral<"drug_in_class_match">;
@@ -4861,9 +4861,9 @@ export declare const ExecutiveRecommendationDataSchema: z.ZodObject<{
         insufficient_evidence: "insufficient_evidence";
     }>;
     confidence: z.ZodEnum<{
-        high: "high";
-        medium: "medium";
         low: "low";
+        medium: "medium";
+        high: "high";
     }>;
     rationale: z.ZodString;
     key_strengths: z.ZodDefault<z.ZodArray<z.ZodString>>;
@@ -4899,9 +4899,9 @@ export declare const ExecutiveRecommendationSchema: z.ZodDiscriminatedUnion<[z.Z
             insufficient_evidence: "insufficient_evidence";
         }>;
         confidence: z.ZodEnum<{
-            high: "high";
-            medium: "medium";
             low: "low";
+            medium: "medium";
+            high: "high";
         }>;
         rationale: z.ZodString;
         key_strengths: z.ZodDefault<z.ZodArray<z.ZodString>>;
@@ -5713,11 +5713,11 @@ export declare const ReferenceBiologyShape: z.ZodObject<{
                         dog: "dog";
                     }>;
                     rank: z.ZodEnum<{
+                        low: "low";
+                        medium: "medium";
+                        high: "high";
                         no_data: "no_data";
                         absent: "absent";
-                        high: "high";
-                        medium: "medium";
-                        low: "low";
                         not_loaded: "not_loaded";
                     }>;
                 }, z.core.$strip>>;
@@ -6231,9 +6231,9 @@ export declare const DossierSchema: z.ZodObject<{
                     start_date: z.ZodNullable<z.ZodString>;
                     completion_date: z.ZodNullable<z.ZodString>;
                     match_confidence: z.ZodEnum<{
-                        high: "high";
-                        medium: "medium";
                         low: "low";
+                        medium: "medium";
+                        high: "high";
                         off_target: "off_target";
                     }>;
                     attribution: z.ZodObject<{
@@ -6288,9 +6288,9 @@ export declare const DossierSchema: z.ZodObject<{
                     start_date: z.ZodNullable<z.ZodString>;
                     completion_date: z.ZodNullable<z.ZodString>;
                     match_confidence: z.ZodEnum<{
-                        high: "high";
-                        medium: "medium";
                         low: "low";
+                        medium: "medium";
+                        high: "high";
                         off_target: "off_target";
                     }>;
                     attribution: z.ZodObject<{
@@ -6644,9 +6644,9 @@ export declare const DossierSchema: z.ZodObject<{
                         oncology: "oncology";
                     }>;
                     risk_level: z.ZodEnum<{
-                        high: "high";
-                        medium: "medium";
                         low: "low";
+                        medium: "medium";
+                        high: "high";
                     }>;
                     signal_type_count: z.ZodNumber;
                     signals: z.ZodObject<{
@@ -7198,9 +7198,9 @@ export declare const DossierSchema: z.ZodObject<{
                     trail: z.ZodString;
                     mechanism_hypothesis: z.ZodOptional<z.ZodNullable<z.ZodString>>;
                     severity: z.ZodEnum<{
-                        high: "high";
-                        medium: "medium";
                         low: "low";
+                        medium: "medium";
+                        high: "high";
                     }>;
                     support: z.ZodDiscriminatedUnion<[z.ZodObject<{
                         state: z.ZodLiteral<"scored">;
@@ -8417,11 +8417,11 @@ export declare const DossierSchema: z.ZodObject<{
                             dog: "dog";
                         }>;
                         rank: z.ZodEnum<{
+                            low: "low";
+                            medium: "medium";
+                            high: "high";
                             no_data: "no_data";
                             absent: "absent";
-                            high: "high";
-                            medium: "medium";
-                            low: "low";
                             not_loaded: "not_loaded";
                         }>;
                     }, z.core.$strip>>;
@@ -8755,9 +8755,9 @@ export declare const DossierSchema: z.ZodObject<{
                     start_date: z.ZodOptional<z.ZodString>;
                     completion_date: z.ZodOptional<z.ZodString>;
                     match_confidence: z.ZodEnum<{
-                        high: "high";
-                        medium: "medium";
                         low: "low";
+                        medium: "medium";
+                        high: "high";
                     }>;
                     relevance_basis: z.ZodDiscriminatedUnion<[z.ZodObject<{
                         kind: z.ZodLiteral<"drug_in_class_match">;
@@ -8824,9 +8824,9 @@ export declare const DossierSchema: z.ZodObject<{
                     start_date: z.ZodOptional<z.ZodString>;
                     completion_date: z.ZodOptional<z.ZodString>;
                     match_confidence: z.ZodEnum<{
-                        high: "high";
-                        medium: "medium";
                         low: "low";
+                        medium: "medium";
+                        high: "high";
                     }>;
                     relevance_basis: z.ZodDiscriminatedUnion<[z.ZodObject<{
                         kind: z.ZodLiteral<"drug_in_class_match">;
@@ -9077,9 +9077,9 @@ export declare const DossierSchema: z.ZodObject<{
                 insufficient_evidence: "insufficient_evidence";
             }>;
             confidence: z.ZodEnum<{
-                high: "high";
-                medium: "medium";
                 low: "low";
+                medium: "medium";
+                high: "high";
             }>;
             rationale: z.ZodString;
             key_strengths: z.ZodDefault<z.ZodArray<z.ZodString>>;
@@ -9660,9 +9660,9 @@ export declare const DossierBodySchema: z.ZodObject<{
                     start_date: z.ZodNullable<z.ZodString>;
                     completion_date: z.ZodNullable<z.ZodString>;
                     match_confidence: z.ZodEnum<{
-                        high: "high";
-                        medium: "medium";
                         low: "low";
+                        medium: "medium";
+                        high: "high";
                         off_target: "off_target";
                     }>;
                     attribution: z.ZodObject<{
@@ -9717,9 +9717,9 @@ export declare const DossierBodySchema: z.ZodObject<{
                     start_date: z.ZodNullable<z.ZodString>;
                     completion_date: z.ZodNullable<z.ZodString>;
                     match_confidence: z.ZodEnum<{
-                        high: "high";
-                        medium: "medium";
                         low: "low";
+                        medium: "medium";
+                        high: "high";
                         off_target: "off_target";
                     }>;
                     attribution: z.ZodObject<{
@@ -10073,9 +10073,9 @@ export declare const DossierBodySchema: z.ZodObject<{
                         oncology: "oncology";
                     }>;
                     risk_level: z.ZodEnum<{
-                        high: "high";
-                        medium: "medium";
                         low: "low";
+                        medium: "medium";
+                        high: "high";
                     }>;
                     signal_type_count: z.ZodNumber;
                     signals: z.ZodObject<{
@@ -10627,9 +10627,9 @@ export declare const DossierBodySchema: z.ZodObject<{
                     trail: z.ZodString;
                     mechanism_hypothesis: z.ZodOptional<z.ZodNullable<z.ZodString>>;
                     severity: z.ZodEnum<{
-                        high: "high";
-                        medium: "medium";
                         low: "low";
+                        medium: "medium";
+                        high: "high";
                     }>;
                     support: z.ZodDiscriminatedUnion<[z.ZodObject<{
                         state: z.ZodLiteral<"scored">;
@@ -11680,11 +11680,11 @@ export declare const DossierBodySchema: z.ZodObject<{
                             dog: "dog";
                         }>;
                         rank: z.ZodEnum<{
+                            low: "low";
+                            medium: "medium";
+                            high: "high";
                             no_data: "no_data";
                             absent: "absent";
-                            high: "high";
-                            medium: "medium";
-                            low: "low";
                             not_loaded: "not_loaded";
                         }>;
                     }, z.core.$strip>>;
@@ -12018,9 +12018,9 @@ export declare const DossierBodySchema: z.ZodObject<{
                     start_date: z.ZodOptional<z.ZodString>;
                     completion_date: z.ZodOptional<z.ZodString>;
                     match_confidence: z.ZodEnum<{
-                        high: "high";
-                        medium: "medium";
                         low: "low";
+                        medium: "medium";
+                        high: "high";
                     }>;
                     relevance_basis: z.ZodDiscriminatedUnion<[z.ZodObject<{
                         kind: z.ZodLiteral<"drug_in_class_match">;
@@ -12087,9 +12087,9 @@ export declare const DossierBodySchema: z.ZodObject<{
                     start_date: z.ZodOptional<z.ZodString>;
                     completion_date: z.ZodOptional<z.ZodString>;
                     match_confidence: z.ZodEnum<{
-                        high: "high";
-                        medium: "medium";
                         low: "low";
+                        medium: "medium";
+                        high: "high";
                     }>;
                     relevance_basis: z.ZodDiscriminatedUnion<[z.ZodObject<{
                         kind: z.ZodLiteral<"drug_in_class_match">;
@@ -12340,9 +12340,9 @@ export declare const DossierBodySchema: z.ZodObject<{
                 insufficient_evidence: "insufficient_evidence";
             }>;
             confidence: z.ZodEnum<{
-                high: "high";
-                medium: "medium";
                 low: "low";
+                medium: "medium";
+                high: "high";
             }>;
             rationale: z.ZodString;
             key_strengths: z.ZodDefault<z.ZodArray<z.ZodString>>;

package/dist/data/safety-panel-schema.d.ts

@@ -29,9 +29,9 @@ export declare const SafetyTargetSchema: z.ZodObject<{
     }>;
     clinical_consequence: z.ZodString;
     severity: z.ZodEnum<{
-        high: "high";
-        medium: "medium";
         low: "low";
+        medium: "medium";
+        high: "high";
     }>;
     references: z.ZodArray<z.ZodString>;
 }, z.core.$strip>;
@@ -68,9 +68,9 @@ export declare const SafetyPanelFileSchema: z.ZodObject<{
         }>;
         clinical_consequence: z.ZodString;
         severity: z.ZodEnum<{
-            high: "high";
-            medium: "medium";
             low: "low";
+            medium: "medium";
+            high: "high";
         }>;
         references: z.ZodArray<z.ZodString>;
     }, z.core.$strip>>;

package/dist/index.d.ts

@@ -67,8 +67,9 @@ export { createConfiguredAiSdkProvider, DEFAULT_MAX_OUTPUT_TOKENS } from "./prov
 export type { AiSdkProviderConfig, ConfiguredAiSdkProviderDeps } from "./providers/ai-sdk.js";
 export { createEmbeddingProvider } from "./providers/embedding.js";
 export type { EmbeddingProviderDeps } from "./providers/embedding.js";
-export type { AgentChat, ChatProvider, EmbeddingProvider, ChatRequest, ChatResponse, ChatStreamEvent, ChatUsage, ModelMessage, PromptCachePolicy, } from "./providers/types.js";
+export type { AgentChat, ChatProvider, EmbeddingProvider, ChatRequest, ChatResponse, ChatStreamEvent, ChatUsage, ModelMessage, PromptCachePolicy, ReasoningPolicy, } from "./providers/types.js";
 export { DEFAULT_PROMPT_CACHE, promptCacheProviderOptions } from "./providers/prompt-cache.js";
+export { DEFAULT_REASONING } from "./providers/reasoning.js";
 export { toProviderError, isProviderError } from "./providers/errors.js";
 export type { ProviderError } from "./providers/errors.js";
 export { createStreamingChat } from "./providers/streaming-chat.js";

package/dist/index.js

@@ -104,6 +104,15 @@ export { createEmbeddingProvider } from "./providers/embedding.js";
 // `"off"`; the `cortex.harness.agent.cache_*_tokens` metrics show which case a
 // deployment is actually in.
 export { DEFAULT_PROMPT_CACHE, promptCacheProviderOptions } from "./providers/prompt-cache.js";
+// Reasoning depth. `ReasoningPolicy` is the vendor-neutral name for how deep a
+// model reasons; a composition root sets it per run through
+// `RunAgentOptions.reasoning`. It defaults to `DEFAULT_REASONING` — `xhigh` —
+// because an agent loop drives tools over many iterations, and a shallow turn
+// there wastes more calls than the deeper turn costs in tokens. The provider
+// package resolves the name for the model that it is bound to, thus a model
+// that accepts no `xhigh` gets the nearest name that it accepts. A host on a
+// model with no reasoning support passes `"provider-default"`.
+export { DEFAULT_REASONING } from "./providers/reasoning.js";
 // Provider error channel. `ProviderError` is the value `chat`/`embed` fail
 // with; `toProviderError` is its sole constructor. Exposed so an embedder
 // realizing its own `ChatProvider`/`EmbeddingProvider` fails with the exact