phenoml 9.1.0 → 10.0.0

package/dist/esm/api/resources/cohort/client/Client.mjs

@@ -8,20 +8,22 @@ var __awaiter = (this && this.__awaiter) || function (thisArg, _arguments, P, ge
         step((generator = generator.apply(thisArg, _arguments || [])).next());
     });
 };
-import { mergeHeaders, mergeOnlyDefinedHeaders } from "../../../../core/headers.mjs";
+import { normalizeClientOptionsWithAuth } from "../../../../BaseClient.mjs";
+import { mergeHeaders } from "../../../../core/headers.mjs";
 import * as core from "../../../../core/index.mjs";
 import * as environments from "../../../../environments.mjs";
+import { handleNonStatusCodeError } from "../../../../errors/handleNonStatusCodeError.mjs";
 import * as errors from "../../../../errors/index.mjs";
 import * as phenoml from "../../../index.mjs";
-export class Cohort {
-    constructor(_options) {
-        this._options = _options;
+export class CohortClient {
+    constructor(options = {}) {
+        this._options = normalizeClientOptionsWithAuth(options);
     }
     /**
      * Converts natural language text into structured FHIR search queries for patient cohort analysis
      *
      * @param {phenoml.cohort.CohortRequest} request
-     * @param {Cohort.RequestOptions} requestOptions - Request-specific configuration.
+     * @param {CohortClient.RequestOptions} requestOptions - Request-specific configuration.
      *
      * @throws {@link phenoml.cohort.BadRequestError}
      * @throws {@link phenoml.cohort.UnauthorizedError}
@@ -38,7 +40,8 @@ export class Cohort {
     __analyze(request, requestOptions) {
         return __awaiter(this, void 0, void 0, function* () {
             var _a, _b, _c, _d, _e, _f, _g, _h, _j, _k;
-            const _headers = mergeHeaders((_a = this._options) === null || _a === void 0 ? void 0 : _a.headers, mergeOnlyDefinedHeaders({ Authorization: yield this._getAuthorizationHeader() }), requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.headers);
+            const _authRequest = yield this._options.authProvider.getAuthRequest();
+            const _headers = mergeHeaders(_authRequest.headers, (_a = this._options) === null || _a === void 0 ? void 0 : _a.headers, requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.headers);
             const _response = yield ((_b = this._options.fetcher) !== null && _b !== void 0 ? _b : core.fetcher)({
                 url: core.url.join((_d = (_c = (yield core.Supplier.get(this._options.baseUrl))) !== null && _c !== void 0 ? _c : (yield core.Supplier.get(this._options.environment))) !== null && _d !== void 0 ? _d : environments.phenomlEnvironment.Default, "cohort"),
                 method: "POST",
@@ -72,26 +75,7 @@ export class Cohort {
                         });
                 }
             }
-            switch (_response.error.reason) {
-                case "non-json":
-                    throw new errors.phenomlError({
-                        statusCode: _response.error.statusCode,
-                        body: _response.error.rawBody,
-                        rawResponse: _response.rawResponse,
-                    });
-                case "timeout":
-                    throw new errors.phenomlTimeoutError("Timeout exceeded when calling POST /cohort.");
-                case "unknown":
-                    throw new errors.phenomlError({
-                        message: _response.error.errorMessage,
-                        rawResponse: _response.rawResponse,
-                    });
-            }
-        });
-    }
-    _getAuthorizationHeader() {
-        return __awaiter(this, void 0, void 0, function* () {
-            return `Bearer ${yield core.Supplier.get(this._options.token)}`;
+            return handleNonStatusCodeError(_response.error, _response.rawResponse, "POST", "/cohort");
         });
     }
 }

package/dist/esm/api/resources/cohort/errors/BadRequestError.mjs

@@ -8,6 +8,10 @@ export class BadRequestError extends errors.phenomlError {
             body: body,
             rawResponse: rawResponse,
         });
-        Object.setPrototypeOf(this, BadRequestError.prototype);
+        Object.setPrototypeOf(this, new.target.prototype);
+        if (Error.captureStackTrace) {
+            Error.captureStackTrace(this, this.constructor);
+        }
+        this.name = this.constructor.name;
     }
 }

package/dist/esm/api/resources/cohort/errors/InternalServerError.mjs

@@ -8,6 +8,10 @@ export class InternalServerError extends errors.phenomlError {
             body: body,
             rawResponse: rawResponse,
         });
-        Object.setPrototypeOf(this, InternalServerError.prototype);
+        Object.setPrototypeOf(this, new.target.prototype);
+        if (Error.captureStackTrace) {
+            Error.captureStackTrace(this, this.constructor);
+        }
+        this.name = this.constructor.name;
     }
 }

package/dist/esm/api/resources/cohort/errors/UnauthorizedError.mjs

@@ -8,6 +8,10 @@ export class UnauthorizedError extends errors.phenomlError {
             body: body,
             rawResponse: rawResponse,
         });
-        Object.setPrototypeOf(this, UnauthorizedError.prototype);
+        Object.setPrototypeOf(this, new.target.prototype);
+        if (Error.captureStackTrace) {
+            Error.captureStackTrace(this, this.constructor);
+        }
+        this.name = this.constructor.name;
     }
 }

package/dist/esm/api/resources/cohort/exports.d.mts

@@ -0,0 +1,2 @@
+export { CohortClient } from "./client/Client.mjs";
+export * from "./client/index.mjs";

package/dist/esm/api/resources/cohort/exports.mjs

@@ -0,0 +1,3 @@
+// This file was auto-generated by Fern from our API Definition.
+export { CohortClient } from "./client/Client.mjs";
+export * from "./client/index.mjs";

package/dist/esm/api/resources/cohort/types/CohortResponse.d.mts

@@ -1,9 +1,9 @@
 import type * as phenoml from "../../../index.mjs";
 export interface CohortResponse {
     /** Whether the cohort analysis was successful */
-    success?: boolean;
+    success?: boolean | undefined;
     /** Human-readable message about the analysis result */
-    message?: string;
+    message?: string | undefined;
     /** Array of search concepts converted to FHIR search queries */
-    queries?: phenoml.cohort.SearchConcept[];
+    queries?: phenoml.cohort.SearchConcept[] | undefined;
 }

package/dist/esm/api/resources/cohort/types/SearchConcept.d.mts

@@ -1,10 +1,10 @@
 export interface SearchConcept {
     /** The FHIR resource type for this search concept */
-    resource_type?: string;
+    resource_type?: string | undefined;
     /** FHIR search parameters in standard format */
-    search_params?: string;
+    search_params?: string | undefined;
     /** The original concept description */
-    concept?: string;
+    concept?: string | undefined;
     /** Whether this concept should be excluded from the search */
-    exclude?: boolean;
+    exclude?: boolean | undefined;
 }

package/dist/esm/api/resources/construe/client/Client.d.mts

@@ -1,15 +1,15 @@
 import type { BaseClientOptions, BaseRequestOptions } from "../../../../BaseClient.mjs";
+import { type NormalizedClientOptionsWithAuth } from "../../../../BaseClient.mjs";
 import * as core from "../../../../core/index.mjs";
 import * as phenoml from "../../../index.mjs";
-export declare namespace Construe {
-    interface Options extends BaseClientOptions {
-    }
+export declare namespace ConstrueClient {
+    type Options = BaseClientOptions;
     interface RequestOptions extends BaseRequestOptions {
     }
 }
-export declare class Construe {
-    protected readonly _options: Construe.Options;
-    constructor(_options: Construe.Options);
+export declare class ConstrueClient {
+    protected readonly _options: NormalizedClientOptionsWithAuth<ConstrueClient.Options>;
+    constructor(options?: ConstrueClient.Options);
     /**
      * Upload a custom medical code system with codes and descriptions for use in code extraction. Requires a paid plan.
      * Returns 202 immediately; embedding generation runs asynchronously. Poll
@@ -17,7 +17,7 @@ export declare class Construe {
      * transitions from "processing" to "ready" or "failed".
      *
      * @param {phenoml.construe.UploadRequest} request
-     * @param {Construe.RequestOptions} requestOptions - Request-specific configuration.
+     * @param {ConstrueClient.RequestOptions} requestOptions - Request-specific configuration.
      *
      * @throws {@link phenoml.construe.BadRequestError}
      * @throws {@link phenoml.construe.UnauthorizedError}
@@ -33,7 +33,7 @@ export declare class Construe {
      *         format: "csv"
      *     })
      */
-    uploadCodeSystem(request: phenoml.construe.UploadRequest, requestOptions?: Construe.RequestOptions): core.HttpResponsePromise<phenoml.construe.ConstrueUploadCodeSystemResponse>;
+    uploadCodeSystem(request: phenoml.construe.UploadRequest, requestOptions?: ConstrueClient.RequestOptions): core.HttpResponsePromise<phenoml.construe.ConstrueUploadCodeSystemResponse>;
     private __uploadCodeSystem;
     /**
      * Converts natural language text into structured medical codes.
@@ -41,7 +41,7 @@ export declare class Construe {
      * Usage of CPT is subject to AMA requirements: see PhenoML Terms of Service.
      *
      * @param {phenoml.construe.ExtractRequest} request
-     * @param {Construe.RequestOptions} requestOptions - Request-specific configuration.
+     * @param {ConstrueClient.RequestOptions} requestOptions - Request-specific configuration.
      *
      * @throws {@link phenoml.construe.BadRequestError}
      * @throws {@link phenoml.construe.UnauthorizedError}
@@ -55,12 +55,12 @@ export declare class Construe {
      *         text: "Patient is a 14-year-old female, previously healthy, who is here for evaluation of abnormal renal ultrasound with atrophic right kidney"
      *     })
      */
-    extractCodes(request: phenoml.construe.ExtractRequest, requestOptions?: Construe.RequestOptions): core.HttpResponsePromise<phenoml.construe.ExtractCodesResult>;
+    extractCodes(request: phenoml.construe.ExtractRequest, requestOptions?: ConstrueClient.RequestOptions): core.HttpResponsePromise<phenoml.construe.ExtractCodesResult>;
     private __extractCodes;
     /**
      * Returns the terminology server's catalog of available code systems, including both built-in standard terminologies and custom uploaded systems.
      *
-     * @param {Construe.RequestOptions} requestOptions - Request-specific configuration.
+     * @param {ConstrueClient.RequestOptions} requestOptions - Request-specific configuration.
      *
      * @throws {@link phenoml.construe.UnauthorizedError}
      * @throws {@link phenoml.construe.InternalServerError}
@@ -68,14 +68,14 @@ export declare class Construe {
      * @example
      *     await client.construe.listAvailableCodeSystems()
      */
-    listAvailableCodeSystems(requestOptions?: Construe.RequestOptions): core.HttpResponsePromise<phenoml.construe.ListCodeSystemsResponse>;
+    listAvailableCodeSystems(requestOptions?: ConstrueClient.RequestOptions): core.HttpResponsePromise<phenoml.construe.ListCodeSystemsResponse>;
     private __listAvailableCodeSystems;
     /**
      * Returns full metadata for a single code system, including timestamps and builtin status.
      *
      * @param {string} codesystem - Code system name (e.g., "ICD-10-CM", "SNOMED_CT_US_LITE")
      * @param {phenoml.construe.GetConstrueCodesSystemsCodesystemRequest} request
-     * @param {Construe.RequestOptions} requestOptions - Request-specific configuration.
+     * @param {ConstrueClient.RequestOptions} requestOptions - Request-specific configuration.
      *
      * @throws {@link phenoml.construe.BadRequestError}
      * @throws {@link phenoml.construe.UnauthorizedError}
@@ -87,7 +87,7 @@ export declare class Construe {
      *         version: "2025"
      *     })
      */
-    getCodeSystemDetail(codesystem: string, request?: phenoml.construe.GetConstrueCodesSystemsCodesystemRequest, requestOptions?: Construe.RequestOptions): core.HttpResponsePromise<phenoml.construe.GetCodeSystemDetailResponse>;
+    getCodeSystemDetail(codesystem: string, request?: phenoml.construe.GetConstrueCodesSystemsCodesystemRequest, requestOptions?: ConstrueClient.RequestOptions): core.HttpResponsePromise<phenoml.construe.GetCodeSystemDetailResponse>;
     private __getCodeSystemDetail;
     /**
      * Deletes a custom (non-builtin) code system and all its codes. Builtin systems cannot be deleted.
@@ -95,7 +95,7 @@ export declare class Construe {
      *
      * @param {string} codesystem - Code system name
      * @param {phenoml.construe.DeleteConstrueCodesSystemsCodesystemRequest} request
-     * @param {Construe.RequestOptions} requestOptions - Request-specific configuration.
+     * @param {ConstrueClient.RequestOptions} requestOptions - Request-specific configuration.
      *
      * @throws {@link phenoml.construe.BadRequestError}
      * @throws {@link phenoml.construe.UnauthorizedError}
@@ -108,7 +108,7 @@ export declare class Construe {
      *         version: "version"
      *     })
      */
-    deleteCustomCodeSystem(codesystem: string, request?: phenoml.construe.DeleteConstrueCodesSystemsCodesystemRequest, requestOptions?: Construe.RequestOptions): core.HttpResponsePromise<phenoml.construe.DeleteCodeSystemResponse>;
+    deleteCustomCodeSystem(codesystem: string, request?: phenoml.construe.DeleteConstrueCodesSystemsCodesystemRequest, requestOptions?: ConstrueClient.RequestOptions): core.HttpResponsePromise<phenoml.construe.DeleteCodeSystemResponse>;
     private __deleteCustomCodeSystem;
     /**
      * Exports a custom (non-builtin) code system as a JSON file compatible with the upload format.
@@ -117,7 +117,7 @@ export declare class Construe {
      *
      * @param {string} codesystem - Code system name
      * @param {phenoml.construe.GetConstrueCodesSystemsCodesystemExportRequest} request
-     * @param {Construe.RequestOptions} requestOptions - Request-specific configuration.
+     * @param {ConstrueClient.RequestOptions} requestOptions - Request-specific configuration.
      *
      * @throws {@link phenoml.construe.BadRequestError}
      * @throws {@link phenoml.construe.UnauthorizedError}
@@ -132,7 +132,7 @@ export declare class Construe {
      *         version: "version"
      *     })
      */
-    exportCustomCodeSystem(codesystem: string, request?: phenoml.construe.GetConstrueCodesSystemsCodesystemExportRequest, requestOptions?: Construe.RequestOptions): core.HttpResponsePromise<phenoml.construe.ExportCodeSystemResponse>;
+    exportCustomCodeSystem(codesystem: string, request?: phenoml.construe.GetConstrueCodesSystemsCodesystemExportRequest, requestOptions?: ConstrueClient.RequestOptions): core.HttpResponsePromise<phenoml.construe.ExportCodeSystemResponse>;
     private __exportCustomCodeSystem;
     /**
      * Returns a paginated list of all codes in the specified code system from the terminology server.
@@ -141,7 +141,7 @@ export declare class Construe {
      *
      * @param {string} codesystem - Code system name (e.g., "ICD-10-CM", "SNOMED_CT_US_LITE")
      * @param {phenoml.construe.GetConstrueCodesCodesystemRequest} request
-     * @param {Construe.RequestOptions} requestOptions - Request-specific configuration.
+     * @param {ConstrueClient.RequestOptions} requestOptions - Request-specific configuration.
      *
      * @throws {@link phenoml.construe.BadRequestError}
      * @throws {@link phenoml.construe.UnauthorizedError}
@@ -155,7 +155,7 @@ export declare class Construe {
      *         limit: 1
      *     })
      */
-    listCodesInACodeSystem(codesystem: string, request?: phenoml.construe.GetConstrueCodesCodesystemRequest, requestOptions?: Construe.RequestOptions): core.HttpResponsePromise<phenoml.construe.ListCodesResponse>;
+    listCodesInACodeSystem(codesystem: string, request?: phenoml.construe.GetConstrueCodesCodesystemRequest, requestOptions?: ConstrueClient.RequestOptions): core.HttpResponsePromise<phenoml.construe.ListCodesResponse>;
     private __listCodesInACodeSystem;
     /**
      * Looks up a specific code in the terminology server and returns its details.
@@ -165,7 +165,7 @@ export declare class Construe {
      * @param {string} codesystem - Code system name
      * @param {string} codeID - The code identifier
      * @param {phenoml.construe.GetConstrueCodesCodesystemCodeIdRequest} request
-     * @param {Construe.RequestOptions} requestOptions - Request-specific configuration.
+     * @param {ConstrueClient.RequestOptions} requestOptions - Request-specific configuration.
      *
      * @throws {@link phenoml.construe.BadRequestError}
      * @throws {@link phenoml.construe.UnauthorizedError}
@@ -177,7 +177,7 @@ export declare class Construe {
      *         version: "version"
      *     })
      */
-    getASpecificCode(codesystem: string, codeID: string, request?: phenoml.construe.GetConstrueCodesCodesystemCodeIdRequest, requestOptions?: Construe.RequestOptions): core.HttpResponsePromise<phenoml.construe.GetCodeResponse>;
+    getASpecificCode(codesystem: string, codeID: string, request?: phenoml.construe.GetConstrueCodesCodesystemCodeIdRequest, requestOptions?: ConstrueClient.RequestOptions): core.HttpResponsePromise<phenoml.construe.GetCodeResponse>;
     private __getASpecificCode;
     /**
      * Performs semantic similarity search using vector embeddings.
@@ -202,7 +202,7 @@ export declare class Construe {
      *
      * @param {string} codesystem - Code system name
      * @param {phenoml.construe.GetConstrueCodesCodesystemSearchSemanticRequest} request
-     * @param {Construe.RequestOptions} requestOptions - Request-specific configuration.
+     * @param {ConstrueClient.RequestOptions} requestOptions - Request-specific configuration.
      *
      * @throws {@link phenoml.construe.BadRequestError}
      * @throws {@link phenoml.construe.UnauthorizedError}
@@ -216,14 +216,14 @@ export declare class Construe {
      *         limit: 1
      *     })
      */
-    semanticSearchEmbeddingBased(codesystem: string, request: phenoml.construe.GetConstrueCodesCodesystemSearchSemanticRequest, requestOptions?: Construe.RequestOptions): core.HttpResponsePromise<phenoml.construe.SemanticSearchResponse>;
+    semanticSearchEmbeddingBased(codesystem: string, request: phenoml.construe.GetConstrueCodesCodesystemSearchSemanticRequest, requestOptions?: ConstrueClient.RequestOptions): core.HttpResponsePromise<phenoml.construe.SemanticSearchResponse>;
     private __semanticSearchEmbeddingBased;
     /**
      * Submits user feedback on results from the Construe extraction endpoint.
      * Feedback includes the full extraction result received and the result the user expected.
      *
      * @param {phenoml.construe.FeedbackRequest} request
-     * @param {Construe.RequestOptions} requestOptions - Request-specific configuration.
+     * @param {ConstrueClient.RequestOptions} requestOptions - Request-specific configuration.
      *
      * @throws {@link phenoml.construe.BadRequestError}
      * @throws {@link phenoml.construe.UnauthorizedError}
@@ -251,7 +251,7 @@ export declare class Construe {
      *         }
      *     })
      */
-    submitFeedbackOnExtractionResults(request: phenoml.construe.FeedbackRequest, requestOptions?: Construe.RequestOptions): core.HttpResponsePromise<phenoml.construe.FeedbackResponse>;
+    submitFeedbackOnExtractionResults(request: phenoml.construe.FeedbackRequest, requestOptions?: ConstrueClient.RequestOptions): core.HttpResponsePromise<phenoml.construe.FeedbackResponse>;
     private __submitFeedbackOnExtractionResults;
     /**
      * Performs fast full-text search over code IDs and descriptions.
@@ -281,7 +281,7 @@ export declare class Construe {
      *
      * @param {string} codesystem - Code system name
      * @param {phenoml.construe.GetConstrueCodesCodesystemSearchTextRequest} request
-     * @param {Construe.RequestOptions} requestOptions - Request-specific configuration.
+     * @param {ConstrueClient.RequestOptions} requestOptions - Request-specific configuration.
      *
      * @throws {@link phenoml.construe.BadRequestError}
      * @throws {@link phenoml.construe.UnauthorizedError}
@@ -296,7 +296,6 @@ export declare class Construe {
      *         limit: 1
      *     })
      */
-    terminologyServerTextSearch(codesystem: string, request: phenoml.construe.GetConstrueCodesCodesystemSearchTextRequest, requestOptions?: Construe.RequestOptions): core.HttpResponsePromise<phenoml.construe.TextSearchResponse>;
+    terminologyServerTextSearch(codesystem: string, request: phenoml.construe.GetConstrueCodesCodesystemSearchTextRequest, requestOptions?: ConstrueClient.RequestOptions): core.HttpResponsePromise<phenoml.construe.TextSearchResponse>;
     private __terminologyServerTextSearch;
-    protected _getAuthorizationHeader(): Promise<string>;
 }