phenoml 17.5.0 → 17.8.0

package/dist/cjs/api/resources/construe/errors/NotImplementedError.js

@@ -48,7 +48,7 @@ class NotImplementedError extends errors.phenomlError {
         if (Error.captureStackTrace) {
             Error.captureStackTrace(this, this.constructor);
         }
-        this.name = this.constructor.name;
+        this.name = "NotImplementedError";
     }
 }
 exports.NotImplementedError = NotImplementedError;

package/dist/cjs/api/resources/construe/errors/ServiceUnavailableError.js

@@ -48,7 +48,7 @@ class ServiceUnavailableError extends errors.phenomlError {
         if (Error.captureStackTrace) {
             Error.captureStackTrace(this, this.constructor);
         }
-        this.name = this.constructor.name;
+        this.name = "ServiceUnavailableError";
     }
 }
 exports.ServiceUnavailableError = ServiceUnavailableError;

package/dist/cjs/api/resources/construe/errors/UnauthorizedError.js

@@ -48,7 +48,7 @@ class UnauthorizedError extends errors.phenomlError {
         if (Error.captureStackTrace) {
             Error.captureStackTrace(this, this.constructor);
         }
-        this.name = this.constructor.name;
+        this.name = "UnauthorizedError";
     }
 }
 exports.UnauthorizedError = UnauthorizedError;

package/dist/cjs/api/resources/construe/resources/codeSystems/client/Client.js

@@ -47,6 +47,7 @@ exports.CodeSystemsClient = void 0;
 const BaseClient_js_1 = require("../../../../../../BaseClient.js");
 const headers_js_1 = require("../../../../../../core/headers.js");
 const core = __importStar(require("../../../../../../core/index.js"));
+const requestBody_js_1 = require("../../../../../../core/requestBody.js");
 const environments = __importStar(require("../../../../../../environments.js"));
 const handleNonStatusCodeError_js_1 = require("../../../../../../errors/handleNonStatusCodeError.js");
 const errors = __importStar(require("../../../../../../errors/index.js"));
@@ -113,7 +114,7 @@ class CodeSystemsClient {
                 contentType: "application/json",
                 queryString: core.url.queryBuilder().mergeAdditional(requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.queryParams).build(),
                 requestType: "json",
-                body: request,
+                body: (0, requestBody_js_1.mergeAdditionalBodyParameters)(request, requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.additionalBodyParameters),
                 timeoutMs: ((_g = (_e = requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.timeoutInSeconds) !== null && _e !== void 0 ? _e : (_f = this._options) === null || _f === void 0 ? void 0 : _f.timeoutInSeconds) !== null && _g !== void 0 ? _g : 60) * 1000,
                 maxRetries: (_h = requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.maxRetries) !== null && _h !== void 0 ? _h : (_j = this._options) === null || _j === void 0 ? void 0 : _j.maxRetries,
                 abortSignal: requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.abortSignal,

package/dist/cjs/api/resources/construe/resources/codeSystems/client/requests/DeleteRequest.d.ts

@@ -5,6 +5,6 @@
  *     }
  */
 export interface DeleteRequest {
-    /** Specific version of the code system. Required if multiple versions exist. */
+    /** Specific version of the custom code system. */
     version?: string;
 }

package/dist/cjs/api/resources/construe/resources/codeSystems/client/requests/ExportRequest.d.ts

@@ -5,6 +5,6 @@
  *     }
  */
 export interface ExportRequest {
-    /** Specific version of the code system. Required if multiple versions exist. */
+    /** Specific version of the custom code system. */
     version?: string;
 }

package/dist/cjs/api/resources/construe/resources/codeSystems/client/requests/FindRequest.d.ts

@@ -5,6 +5,6 @@
  *     }
  */
 export interface FindRequest {
-    /** Specific version of the code system. Required if multiple versions exist. */
+    /** Specific version of the code system, such as `umls-2026aa`. */
     version?: string;
 }

package/dist/cjs/api/resources/construe/resources/codes/client/Client.d.ts

@@ -16,6 +16,9 @@ export declare class CodesClient {
     /**
      * Converts natural language text into structured medical codes.
      *
+     * Pass `system.version` to select a specific code system version, for example
+     * `umls-2026aa` for UMLS 2026AA-backed systems.
+     *
      * Usage of CPT is subject to AMA requirements: see PhenoML Terms of Service.
      *
      * @param {phenoml.construe.ExtractRequest} request
@@ -39,6 +42,18 @@ export declare class CodesClient {
      *
      * @example
      *     await client.construe.codes.extract({
+     *         text: "Patient has type 2 diabetes mellitus with diabetic chronic kidney disease.",
+     *         system: {
+     *             name: "ICD-10-CM",
+     *             version: "umls-2026aa"
+     *         },
+     *         config: {
+     *             validation_method: "simple"
+     *         }
+     *     })
+     *
+     * @example
+     *     await client.construe.codes.extract({
      *         text: "45-year-old male presents with chest pain radiating to left arm, shortness of breath, and diaphoresis. ECG shows ST elevation in leads II, III, and aVF.",
      *         system: {
      *             name: "SNOMED_CT_US_LITE",

package/dist/cjs/api/resources/construe/resources/codes/client/Client.js

@@ -47,6 +47,7 @@ exports.CodesClient = void 0;
 const BaseClient_js_1 = require("../../../../../../BaseClient.js");
 const headers_js_1 = require("../../../../../../core/headers.js");
 const core = __importStar(require("../../../../../../core/index.js"));
+const requestBody_js_1 = require("../../../../../../core/requestBody.js");
 const environments = __importStar(require("../../../../../../environments.js"));
 const handleNonStatusCodeError_js_1 = require("../../../../../../errors/handleNonStatusCodeError.js");
 const errors = __importStar(require("../../../../../../errors/index.js"));
@@ -61,6 +62,9 @@ class CodesClient {
     /**
      * Converts natural language text into structured medical codes.
      *
+     * Pass `system.version` to select a specific code system version, for example
+     * `umls-2026aa` for UMLS 2026AA-backed systems.
+     *
      * Usage of CPT is subject to AMA requirements: see PhenoML Terms of Service.
      *
      * @param {phenoml.construe.ExtractRequest} request
@@ -84,6 +88,18 @@ class CodesClient {
      *
      * @example
      *     await client.construe.codes.extract({
+     *         text: "Patient has type 2 diabetes mellitus with diabetic chronic kidney disease.",
+     *         system: {
+     *             name: "ICD-10-CM",
+     *             version: "umls-2026aa"
+     *         },
+     *         config: {
+     *             validation_method: "simple"
+     *         }
+     *     })
+     *
+     * @example
+     *     await client.construe.codes.extract({
      *         text: "45-year-old male presents with chest pain radiating to left arm, shortness of breath, and diaphoresis. ECG shows ST elevation in leads II, III, and aVF.",
      *         system: {
      *             name: "SNOMED_CT_US_LITE",
@@ -152,7 +168,7 @@ class CodesClient {
                 contentType: "application/json",
                 queryString: core.url.queryBuilder().mergeAdditional(requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.queryParams).build(),
                 requestType: "json",
-                body: request,
+                body: (0, requestBody_js_1.mergeAdditionalBodyParameters)(request, requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.additionalBodyParameters),
                 timeoutMs: ((_g = (_e = requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.timeoutInSeconds) !== null && _e !== void 0 ? _e : (_f = this._options) === null || _f === void 0 ? void 0 : _f.timeoutInSeconds) !== null && _g !== void 0 ? _g : 60) * 1000,
                 maxRetries: (_h = requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.maxRetries) !== null && _h !== void 0 ? _h : (_j = this._options) === null || _j === void 0 ? void 0 : _j.maxRetries,
                 abortSignal: requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.abortSignal,

package/dist/cjs/api/resources/construe/resources/codes/client/requests/CodesListRequest.d.ts

@@ -7,7 +7,7 @@
  *     }
  */
 export interface CodesListRequest {
-    /** Specific version of the code system. Required if multiple versions exist. */
+    /** Specific version of the code system, such as `umls-2026aa`. */
     version?: string;
     /** Pagination cursor from previous response */
     cursor?: string;

package/dist/cjs/api/resources/construe/resources/codes/client/requests/ExtractRequest.d.ts

@@ -11,6 +11,18 @@ import type * as phenoml from "../../../../../../index.js";
  *
  * @example
  *     {
+ *         text: "Patient has type 2 diabetes mellitus with diabetic chronic kidney disease.",
+ *         system: {
+ *             name: "ICD-10-CM",
+ *             version: "umls-2026aa"
+ *         },
+ *         config: {
+ *             validation_method: "simple"
+ *         }
+ *     }
+ *
+ * @example
+ *     {
  *         text: "45-year-old male presents with chest pain radiating to left arm, shortness of breath, and diaphoresis. ECG shows ST elevation in leads II, III, and aVF.",
  *         system: {
  *             name: "SNOMED_CT_US_LITE",

package/dist/cjs/api/resources/construe/resources/codes/client/requests/LookupRequest.d.ts

@@ -5,6 +5,6 @@
  *     }
  */
 export interface LookupRequest {
-    /** Specific version of the code system */
+    /** Specific version of the code system, such as `umls-2026aa`. */
     version?: string;
 }

package/dist/cjs/api/resources/construe/resources/codes/client/requests/SearchSemanticRequest.d.ts

@@ -9,7 +9,7 @@
 export interface SearchSemanticRequest {
     /** Natural language text to find semantically similar codes for */
     text: string;
-    /** Specific version of the code system */
+    /** Specific version of the code system, such as `umls-2026aa`. */
     version?: string;
     /** Maximum number of results (default 10, max 50) */
     limit?: number;

package/dist/cjs/api/resources/construe/resources/codes/client/requests/SearchTextRequest.d.ts

@@ -9,7 +9,7 @@
 export interface SearchTextRequest {
     /** Search query (searches code IDs and descriptions) */
     q: string;
-    /** Specific version of the code system */
+    /** Specific version of the code system, such as `umls-2026aa`. */
     version?: string;
     /** Maximum number of results (default 20, max 100) */
     limit?: number;

package/dist/cjs/api/resources/construe/types/ExtractRequestSystem.d.ts

@@ -3,13 +3,16 @@ export interface ExtractRequestSystem {
      * Code system name. Can be a built-in system or a custom system name.
      *
      * Built-in systems:
-     * * SNOMED_CT_US_LITE - version 20240901
-     * * RXNORM - version 11042024
-     * * ICD-10-CM - version 2025
-     * * ICD-10-PCS - version 2025
-     * * LOINC - version 2.78
-     * * HPO - version 2025
-     * * CPT - version 2025
+     * * CPT
+     * * HCPCS
+     * * HPO
+     * * ICD-10
+     * * ICD-10-CM
+     * * ICD-10-PCS
+     * * LOINC
+     * * RXNORM
+     * * SNOMED_CT_US
+     * * SNOMED_CT_US_LITE
      *
      * Custom systems:
      * * Any valid system name uploaded via /construe/upload. Requires a paid plan.
@@ -17,6 +20,6 @@ export interface ExtractRequestSystem {
      * Usage of CPT is subject to AMA requirements: see PhenoML Terms of Service.
      */
     name?: string | undefined;
-    /** Code system version. Must match the version available in your environment. */
+    /** Specific code system version. */
     version?: string | undefined;
 }

package/dist/cjs/api/resources/fhir/client/Client.js

@@ -47,6 +47,7 @@ exports.FhirClient = void 0;
 const BaseClient_js_1 = require("../../../../BaseClient.js");
 const headers_js_1 = require("../../../../core/headers.js");
 const core = __importStar(require("../../../../core/index.js"));
+const requestBody_js_1 = require("../../../../core/requestBody.js");
 const environments = __importStar(require("../../../../environments.js"));
 const handleNonStatusCodeError_js_1 = require("../../../../errors/handleNonStatusCodeError.js");
 const errors = __importStar(require("../../../../errors/index.js"));
@@ -168,7 +169,7 @@ class FhirClient {
                 contentType: "application/fhir+json",
                 queryString: core.url.queryBuilder().mergeAdditional(requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.queryParams).build(),
                 requestType: "json",
-                body: _body,
+                body: (0, requestBody_js_1.mergeAdditionalBodyParameters)(_body, requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.additionalBodyParameters),
                 timeoutMs: ((_g = (_e = requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.timeoutInSeconds) !== null && _e !== void 0 ? _e : (_f = this._options) === null || _f === void 0 ? void 0 : _f.timeoutInSeconds) !== null && _g !== void 0 ? _g : 60) * 1000,
                 maxRetries: (_h = requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.maxRetries) !== null && _h !== void 0 ? _h : (_j = this._options) === null || _j === void 0 ? void 0 : _j.maxRetries,
                 abortSignal: requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.abortSignal,
@@ -233,7 +234,7 @@ class FhirClient {
                 contentType: "application/fhir+json",
                 queryString: core.url.queryBuilder().mergeAdditional(requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.queryParams).build(),
                 requestType: "json",
-                body: _body,
+                body: (0, requestBody_js_1.mergeAdditionalBodyParameters)(_body, requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.additionalBodyParameters),
                 timeoutMs: ((_g = (_e = requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.timeoutInSeconds) !== null && _e !== void 0 ? _e : (_f = this._options) === null || _f === void 0 ? void 0 : _f.timeoutInSeconds) !== null && _g !== void 0 ? _g : 60) * 1000,
                 maxRetries: (_h = requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.maxRetries) !== null && _h !== void 0 ? _h : (_j = this._options) === null || _j === void 0 ? void 0 : _j.maxRetries,
                 abortSignal: requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.abortSignal,
@@ -417,7 +418,7 @@ class FhirClient {
                 contentType: "application/json-patch+json",
                 queryString: core.url.queryBuilder().mergeAdditional(requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.queryParams).build(),
                 requestType: "json",
-                body: _body,
+                body: (0, requestBody_js_1.mergeAdditionalBodyParameters)(_body, requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.additionalBodyParameters),
                 timeoutMs: ((_g = (_e = requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.timeoutInSeconds) !== null && _e !== void 0 ? _e : (_f = this._options) === null || _f === void 0 ? void 0 : _f.timeoutInSeconds) !== null && _g !== void 0 ? _g : 60) * 1000,
                 maxRetries: (_h = requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.maxRetries) !== null && _h !== void 0 ? _h : (_j = this._options) === null || _j === void 0 ? void 0 : _j.maxRetries,
                 abortSignal: requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.abortSignal,
@@ -511,7 +512,7 @@ class FhirClient {
                 contentType: "application/fhir+json",
                 queryString: core.url.queryBuilder().mergeAdditional(requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.queryParams).build(),
                 requestType: "json",
-                body: _body,
+                body: (0, requestBody_js_1.mergeAdditionalBodyParameters)(_body, requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.additionalBodyParameters),
                 timeoutMs: ((_g = (_e = requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.timeoutInSeconds) !== null && _e !== void 0 ? _e : (_f = this._options) === null || _f === void 0 ? void 0 : _f.timeoutInSeconds) !== null && _g !== void 0 ? _g : 60) * 1000,
                 maxRetries: (_h = requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.maxRetries) !== null && _h !== void 0 ? _h : (_j = this._options) === null || _j === void 0 ? void 0 : _j.maxRetries,
                 abortSignal: requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.abortSignal,

package/dist/cjs/api/resources/fhir2Omop/client/Client.d.ts

@@ -15,6 +15,32 @@ export declare class Fhir2OmopClient {
      * (person, visit_occurrence, condition_occurrence, drug_exposure,
      * procedure_occurrence, measurement, observation).
      *
+     * Resource support is intentionally limited to the OMOP tables returned by
+     * this endpoint:
+     * - `Patient` -> `person`
+     * - `Encounter` -> `visit_occurrence`
+     * - `Condition` -> `condition_occurrence`
+     * - `Procedure` -> `procedure_occurrence`
+     * - `MedicationRequest`, `MedicationStatement`, and
+     *   `MedicationAdministration` -> `drug_exposure`
+     * - `Immunization` -> `drug_exposure`
+     * - `Observation` with a numeric `valueQuantity`, `valueInteger`, or
+     *   numeric-looking `valueString` (for example `"<2"`) -> `measurement`
+     * - non-numeric `Observation` -> `observation`
+     * - `AllergyIntolerance` -> `observation`
+     *
+     * `Medication` is supported only as reference data for medication
+     * resources; it is not emitted as its own row because OMOP CDM has no
+     * Medication table. Other reference/admin resources such as `Practitioner`,
+     * `Organization`, `Location`, `Coverage`, and `Claim`, and clinical
+     * workflow/document resources such as `DiagnosticReport`, `ServiceRequest`,
+     * `CarePlan`, `DocumentReference`, `Composition`, `Specimen`, and
+     * `DeviceUseStatement`, are currently accepted in a Bundle but are not
+     * shaped into OMOP rows. Unsupported resource types are ignored rather than
+     * listed under `dropped`; `dropped` is reserved for supported resource types
+     * that were missing the subject/patient, code, or medication reference data
+     * needed to produce a valid row.
+     *
      * Each resource's primary clinical coding is resolved to a standard OMOP
      * `concept_id`. Alongside the OMOP rows grouped by table (`tables`), the
      * response carries `mappings` (how each source coding resolved, linked back

package/dist/cjs/api/resources/fhir2Omop/client/Client.js

@@ -47,6 +47,7 @@ exports.Fhir2OmopClient = void 0;
 const BaseClient_js_1 = require("../../../../BaseClient.js");
 const headers_js_1 = require("../../../../core/headers.js");
 const core = __importStar(require("../../../../core/index.js"));
+const requestBody_js_1 = require("../../../../core/requestBody.js");
 const environments = __importStar(require("../../../../environments.js"));
 const handleNonStatusCodeError_js_1 = require("../../../../errors/handleNonStatusCodeError.js");
 const errors = __importStar(require("../../../../errors/index.js"));
@@ -60,6 +61,32 @@ class Fhir2OmopClient {
      * (person, visit_occurrence, condition_occurrence, drug_exposure,
      * procedure_occurrence, measurement, observation).
      *
+     * Resource support is intentionally limited to the OMOP tables returned by
+     * this endpoint:
+     * - `Patient` -> `person`
+     * - `Encounter` -> `visit_occurrence`
+     * - `Condition` -> `condition_occurrence`
+     * - `Procedure` -> `procedure_occurrence`
+     * - `MedicationRequest`, `MedicationStatement`, and
+     *   `MedicationAdministration` -> `drug_exposure`
+     * - `Immunization` -> `drug_exposure`
+     * - `Observation` with a numeric `valueQuantity`, `valueInteger`, or
+     *   numeric-looking `valueString` (for example `"<2"`) -> `measurement`
+     * - non-numeric `Observation` -> `observation`
+     * - `AllergyIntolerance` -> `observation`
+     *
+     * `Medication` is supported only as reference data for medication
+     * resources; it is not emitted as its own row because OMOP CDM has no
+     * Medication table. Other reference/admin resources such as `Practitioner`,
+     * `Organization`, `Location`, `Coverage`, and `Claim`, and clinical
+     * workflow/document resources such as `DiagnosticReport`, `ServiceRequest`,
+     * `CarePlan`, `DocumentReference`, `Composition`, `Specimen`, and
+     * `DeviceUseStatement`, are currently accepted in a Bundle but are not
+     * shaped into OMOP rows. Unsupported resource types are ignored rather than
+     * listed under `dropped`; `dropped` is reserved for supported resource types
+     * that were missing the subject/patient, code, or medication reference data
+     * needed to produce a valid row.
+     *
      * Each resource's primary clinical coding is resolved to a standard OMOP
      * `concept_id`. Alongside the OMOP rows grouped by table (`tables`), the
      * response carries `mappings` (how each source coding resolved, linked back
@@ -175,7 +202,7 @@ class Fhir2OmopClient {
                 contentType: "application/json",
                 queryString: core.url.queryBuilder().mergeAdditional(requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.queryParams).build(),
                 requestType: "json",
-                body: request,
+                body: (0, requestBody_js_1.mergeAdditionalBodyParameters)(request, requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.additionalBodyParameters),
                 timeoutMs: ((_g = (_e = requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.timeoutInSeconds) !== null && _e !== void 0 ? _e : (_f = this._options) === null || _f === void 0 ? void 0 : _f.timeoutInSeconds) !== null && _g !== void 0 ? _g : 60) * 1000,
                 maxRetries: (_h = requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.maxRetries) !== null && _h !== void 0 ? _h : (_j = this._options) === null || _j === void 0 ? void 0 : _j.maxRetries,
                 abortSignal: requestOptions === null || requestOptions === void 0 ? void 0 : requestOptions.abortSignal,

package/dist/cjs/api/resources/fhir2Omop/client/requests/CreateOmopRequest.d.ts

@@ -68,9 +68,12 @@
 export interface CreateOmopRequest {
     /**
      * FHIR resources (single resource or Bundle). Must contain at least one
-     * Patient resource. Resources are mapped to OMOP rows; standalone
-     * Medication resources are consumed by medication references rather than
-     * mapped to their own table.
+     * Patient resource. Supported row-producing resources are Patient,
+     * Encounter, Condition, Procedure, MedicationRequest,
+     * MedicationStatement, MedicationAdministration, Immunization,
+     * Observation, and AllergyIntolerance. Standalone Medication resources
+     * are consumed by medication references rather than mapped to their own
+     * table. Other resource types are accepted but ignored.
      */
     fhir_resources: Record<string, unknown>;
 }

package/dist/cjs/api/resources/fhir2Omop/errors/BadRequestError.js

@@ -48,7 +48,7 @@ class BadRequestError extends errors.phenomlError {
         if (Error.captureStackTrace) {
             Error.captureStackTrace(this, this.constructor);
         }
-        this.name = this.constructor.name;
+        this.name = "BadRequestError";
     }
 }
 exports.BadRequestError = BadRequestError;

package/dist/cjs/api/resources/fhir2Omop/errors/InternalServerError.js

@@ -48,7 +48,7 @@ class InternalServerError extends errors.phenomlError {
         if (Error.captureStackTrace) {
             Error.captureStackTrace(this, this.constructor);
         }
-        this.name = this.constructor.name;
+        this.name = "InternalServerError";
     }
 }
 exports.InternalServerError = InternalServerError;

package/dist/cjs/api/resources/fhir2Omop/errors/ServiceUnavailableError.js

@@ -48,7 +48,7 @@ class ServiceUnavailableError extends errors.phenomlError {
         if (Error.captureStackTrace) {
             Error.captureStackTrace(this, this.constructor);
         }
-        this.name = this.constructor.name;
+        this.name = "ServiceUnavailableError";
     }
 }
 exports.ServiceUnavailableError = ServiceUnavailableError;

package/dist/cjs/api/resources/fhir2Omop/errors/UnauthorizedError.js

@@ -48,7 +48,7 @@ class UnauthorizedError extends errors.phenomlError {
         if (Error.captureStackTrace) {
             Error.captureStackTrace(this, this.constructor);
         }
-        this.name = this.constructor.name;
+        this.name = "UnauthorizedError";
     }
 }
 exports.UnauthorizedError = UnauthorizedError;

package/dist/cjs/api/resources/fhir2Omop/types/CareSiteRow.d.ts

@@ -0,0 +1,8 @@
+export interface CareSiteRow {
+    care_site_id?: number | undefined;
+    care_site_name?: string | undefined;
+    place_of_service_concept_id?: number | undefined;
+    location_id?: number | undefined;
+    care_site_source_value?: string | undefined;
+    place_of_service_source_value?: string | undefined;
+}

package/dist/cjs/api/resources/fhir2Omop/types/ConditionOccurrenceRow.d.ts

@@ -7,6 +7,7 @@ export interface ConditionOccurrenceRow {
     condition_end_date?: string | undefined;
     condition_type_concept_id?: number | undefined;
     visit_occurrence_id?: number | undefined;
+    provider_id?: number | undefined;
     condition_source_value?: string | undefined;
     condition_source_concept_id?: number | undefined;
     condition_status_source_value?: string | undefined;

package/dist/cjs/api/resources/fhir2Omop/types/CreateOmopResponse.d.ts

@@ -5,7 +5,12 @@ export interface CreateOmopResponse {
     tables?: phenoml.fhir2Omop.OmopTables | undefined;
     /** One entry per source coding (or one entry for a text-only resource with no coding), describing how it resolved and linking back to the row it produced. */
     mappings?: phenoml.fhir2Omop.MappingEntry[] | undefined;
-    /** Resources that could not be shaped into an OMOP row (rather than emitted as blank rows). */
+    /**
+     * Supported resource instances that could not be shaped into an OMOP
+     * row because required subject/patient, code, or medication reference
+     * data was missing. Unsupported resource types are ignored and do not
+     * appear here.
+     */
     dropped?: phenoml.fhir2Omop.DroppedResource[] | undefined;
     /**
      * The OMOP vocabulary release the clinical codes were resolved against

package/dist/cjs/api/resources/fhir2Omop/types/DeathRow.d.ts

@@ -0,0 +1,9 @@
+export interface DeathRow {
+    person_id?: number | undefined;
+    death_date?: string | undefined;
+    death_datetime?: string | undefined;
+    death_type_concept_id?: number | undefined;
+    cause_concept_id?: number | undefined;
+    cause_source_value?: string | undefined;
+    cause_source_concept_id?: number | undefined;
+}

package/dist/cjs/api/resources/fhir2Omop/types/DeathRow.js

@@ -0,0 +1,3 @@
+"use strict";
+// This file was auto-generated by Fern from our API Definition.
+Object.defineProperty(exports, "__esModule", { value: true });

package/dist/cjs/api/resources/fhir2Omop/types/DrugExposureRow.d.ts

@@ -9,6 +9,7 @@ export interface DrugExposureRow {
     stop_reason?: string | undefined;
     sig?: string | undefined;
     visit_occurrence_id?: number | undefined;
+    provider_id?: number | undefined;
     drug_source_value?: string | undefined;
     drug_source_concept_id?: number | undefined;
 }

package/dist/cjs/api/resources/fhir2Omop/types/LocationRow.d.ts

@@ -0,0 +1,14 @@
+export interface LocationRow {
+    location_id?: number | undefined;
+    address_1?: string | undefined;
+    address_2?: string | undefined;
+    city?: string | undefined;
+    state?: string | undefined;
+    zip?: string | undefined;
+    county?: string | undefined;
+    location_source_value?: string | undefined;
+    country_concept_id?: number | undefined;
+    country_source_value?: string | undefined;
+    latitude?: number | undefined;
+    longitude?: number | undefined;
+}

package/dist/cjs/api/resources/fhir2Omop/types/LocationRow.js

@@ -0,0 +1,3 @@
+"use strict";
+// This file was auto-generated by Fern from our API Definition.
+Object.defineProperty(exports, "__esModule", { value: true });

package/dist/cjs/api/resources/fhir2Omop/types/MeasurementRow.d.ts

@@ -13,6 +13,7 @@ export interface MeasurementRow {
     range_low?: number | undefined;
     range_high?: number | undefined;
     visit_occurrence_id?: number | undefined;
+    provider_id?: number | undefined;
     measurement_source_value?: string | undefined;
     measurement_source_concept_id?: number | undefined;
     unit_source_value?: string | undefined;

package/dist/cjs/api/resources/fhir2Omop/types/ObservationPeriodRow.d.ts

@@ -0,0 +1,7 @@
+export interface ObservationPeriodRow {
+    observation_period_id?: number | undefined;
+    person_id?: number | undefined;
+    observation_period_start_date?: string | undefined;
+    observation_period_end_date?: string | undefined;
+    period_type_concept_id?: number | undefined;
+}

package/dist/cjs/api/resources/fhir2Omop/types/ObservationPeriodRow.js

@@ -0,0 +1,3 @@
+"use strict";
+// This file was auto-generated by Fern from our API Definition.
+Object.defineProperty(exports, "__esModule", { value: true });

package/dist/cjs/api/resources/fhir2Omop/types/ObservationRow.d.ts

@@ -10,6 +10,7 @@ export interface ObservationRow {
     value_as_concept_id?: number | undefined;
     unit_concept_id?: number | undefined;
     visit_occurrence_id?: number | undefined;
+    provider_id?: number | undefined;
     observation_source_value?: string | undefined;
     observation_source_concept_id?: number | undefined;
     unit_source_value?: string | undefined;

package/dist/cjs/api/resources/fhir2Omop/types/OmopTables.d.ts

@@ -3,7 +3,12 @@ import type * as phenoml from "../../../index.js";
  * OMOP CDM v5.4 rows grouped by destination table.
  */
 export interface OmopTables {
+    location?: phenoml.fhir2Omop.LocationRow[] | undefined;
+    care_site?: phenoml.fhir2Omop.CareSiteRow[] | undefined;
+    provider?: phenoml.fhir2Omop.ProviderRow[] | undefined;
     person?: phenoml.fhir2Omop.PersonRow[] | undefined;
+    death?: phenoml.fhir2Omop.DeathRow[] | undefined;
+    observation_period?: phenoml.fhir2Omop.ObservationPeriodRow[] | undefined;
     visit_occurrence?: phenoml.fhir2Omop.VisitOccurrenceRow[] | undefined;
     condition_occurrence?: phenoml.fhir2Omop.ConditionOccurrenceRow[] | undefined;
     drug_exposure?: phenoml.fhir2Omop.DrugExposureRow[] | undefined;

package/dist/cjs/api/resources/fhir2Omop/types/PersonRow.d.ts

@@ -7,6 +7,7 @@ export interface PersonRow {
     birth_datetime?: string | undefined;
     race_concept_id?: number | undefined;
     ethnicity_concept_id?: number | undefined;
+    location_id?: number | undefined;
     person_source_value?: string | undefined;
     gender_source_value?: string | undefined;
     race_source_value?: string | undefined;

package/dist/cjs/api/resources/fhir2Omop/types/ProcedureOccurrenceRow.d.ts

@@ -6,6 +6,7 @@ export interface ProcedureOccurrenceRow {
     procedure_datetime?: string | undefined;
     procedure_type_concept_id?: number | undefined;
     visit_occurrence_id?: number | undefined;
+    provider_id?: number | undefined;
     procedure_source_value?: string | undefined;
     procedure_source_concept_id?: number | undefined;
 }

package/dist/cjs/api/resources/fhir2Omop/types/ProviderRow.d.ts

@@ -0,0 +1,15 @@
+export interface ProviderRow {
+    provider_id?: number | undefined;
+    provider_name?: string | undefined;
+    npi?: string | undefined;
+    dea?: string | undefined;
+    specialty_concept_id?: number | undefined;
+    care_site_id?: number | undefined;
+    year_of_birth?: number | undefined;
+    gender_concept_id?: number | undefined;
+    provider_source_value?: string | undefined;
+    specialty_source_value?: string | undefined;
+    specialty_source_concept_id?: number | undefined;
+    gender_source_value?: string | undefined;
+    gender_source_concept_id?: number | undefined;
+}

package/dist/cjs/api/resources/fhir2Omop/types/ProviderRow.js

@@ -0,0 +1,3 @@
+"use strict";
+// This file was auto-generated by Fern from our API Definition.
+Object.defineProperty(exports, "__esModule", { value: true });

package/dist/cjs/api/resources/fhir2Omop/types/VisitOccurrenceRow.d.ts

@@ -7,5 +7,7 @@ export interface VisitOccurrenceRow {
     visit_end_date?: string | undefined;
     visit_end_datetime?: string | undefined;
     visit_type_concept_id?: number | undefined;
+    provider_id?: number | undefined;
+    care_site_id?: number | undefined;
     visit_source_value?: string | undefined;
 }

package/dist/cjs/api/resources/fhir2Omop/types/index.d.ts

@@ -1,12 +1,17 @@
+export * from "./CareSiteRow.js";
 export * from "./ConditionOccurrenceRow.js";
 export * from "./CreateOmopResponse.js";
+export * from "./DeathRow.js";
 export * from "./DroppedResource.js";
 export * from "./DrugExposureRow.js";
+export * from "./LocationRow.js";
 export * from "./MappingEntry.js";
 export * from "./MeasurementRow.js";
+export * from "./ObservationPeriodRow.js";
 export * from "./ObservationRow.js";
 export * from "./OmopTables.js";
 export * from "./PersonRow.js";
 export * from "./ProcedureOccurrenceRow.js";
+export * from "./ProviderRow.js";
 export * from "./Summary.js";
 export * from "./VisitOccurrenceRow.js";