@openhealth/oht-custom-parser-lib 0.2.71 → 0.2.72
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.
package/dist/index.d.ts
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@@ -1,4 +1,4 @@
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export { postDataImportFileUploadToCore } from './service/reportCreator.service';
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export { postDataImportFileUploadToCore, postReportPreviewToCore } from './service/reportCreator.service';
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export { parseExternalPatientId, parseGender, isPatientAgeValid, handleRejection, queryFileUploadsWithFilters, postFileUploadSetStatus, DigitalizationUpdateFields } from './service/auxiliaryFunctions.service';
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export { ohtMeasurementsExtractor, checkValueForPlausibleValues, extractReferenceRanges, extractReferenceAnnotation, parseExamValue, getRangeFromPositionAndRegex, extractUnit, extractValueFromGreaterLowerThan } from './service/ohtMeasurementsExtractor.service';
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export { getSlackFileIssueNotificationMessage, sendMessageToSlack } from './service/slackMessages.service';
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package/dist/index.js
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@@ -3,11 +3,12 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
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return (mod && mod.__esModule) ? mod : { "default": mod };
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};
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Object.defineProperty(exports, "__esModule", { value: true });
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exports.
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exports.getMappedBiomarkers = void 0;
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exports.getGreaterThanPatterns = exports.pinoLogger = exports.uploadFileBufferToGCS = exports.readFileFromBucket = exports.resolveUnitFromSynonyms = exports.fetchSynonymUnits = exports.processAppendedMappings = exports.isBiomarkerExternalNoVisualRange = exports.isBiomarkerValueNumerical = exports.extractValue = exports.parseErrorObj = exports.makeApiCallWithRetry = exports.RejectReason = exports.UploadType = exports.Sex = exports.DataImportFileUploadStatus = exports.BiomarkerValueType = exports.MeasurementValueComparator = exports.DigitizationStatus = exports.PipelineStep = exports.ReferenceRangeType = exports.BiomarkerCompatibility = exports.ManualCheck = exports.AcfBiomarkerGenericDisclaimerLogic = exports.AcfBiomarkerRangeAnnotationCheck = exports.unitSynonyms = exports.validateTransformationRuleExpression = exports.applyTransformationRules = exports.generateBIMessages = exports.publishToTopic = exports.aggregateBiMessages = exports.aggregateMessages = exports.sendMessageToSlack = exports.getSlackFileIssueNotificationMessage = exports.extractValueFromGreaterLowerThan = exports.extractUnit = exports.getRangeFromPositionAndRegex = exports.parseExamValue = exports.extractReferenceAnnotation = exports.extractReferenceRanges = exports.checkValueForPlausibleValues = exports.ohtMeasurementsExtractor = exports.postFileUploadSetStatus = exports.queryFileUploadsWithFilters = exports.handleRejection = exports.isPatientAgeValid = exports.parseGender = exports.parseExternalPatientId = exports.postReportPreviewToCore = exports.postDataImportFileUploadToCore = void 0;
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exports.getMappedBiomarkers = exports.getLowerThanPatterns = void 0;
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// ### SERVICES ###
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var reportCreator_service_1 = require("./service/reportCreator.service");
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Object.defineProperty(exports, "postDataImportFileUploadToCore", { enumerable: true, get: function () { return reportCreator_service_1.postDataImportFileUploadToCore; } });
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Object.defineProperty(exports, "postReportPreviewToCore", { enumerable: true, get: function () { return reportCreator_service_1.postReportPreviewToCore; } });
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var auxiliaryFunctions_service_1 = require("./service/auxiliaryFunctions.service");
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Object.defineProperty(exports, "parseExternalPatientId", { enumerable: true, get: function () { return auxiliaryFunctions_service_1.parseExternalPatientId; } });
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Object.defineProperty(exports, "parseGender", { enumerable: true, get: function () { return auxiliaryFunctions_service_1.parseGender; } });
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package/dist/index.js.map
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@@ -1 +1 @@
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{"version":3,"file":"index.js","sourceRoot":"","sources":["../index.ts"],"names":[],"mappings":";;;;;;;AAAA,mBAAmB;AACnB,
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{"version":3,"file":"index.js","sourceRoot":"","sources":["../index.ts"],"names":[],"mappings":";;;;;;;AAAA,mBAAmB;AACnB,yEAGyC;AAFvC,uIAAA,8BAA8B,OAAA;AAC9B,gIAAA,uBAAuB,OAAA;AAEzB,mFAQ8C;AAP5C,oIAAA,sBAAsB,OAAA;AACtB,yHAAA,WAAW,OAAA;AACX,+HAAA,iBAAiB,OAAA;AACjB,6HAAA,eAAe,OAAA;AACf,yIAAA,2BAA2B,OAAA;AAC3B,qIAAA,uBAAuB,OAAA;AAIzB,+FASoD;AARlD,4IAAA,wBAAwB,OAAA;AACxB,gJAAA,4BAA4B,OAAA;AAC5B,0IAAA,sBAAsB,OAAA;AACtB,8IAAA,0BAA0B,OAAA;AAC1B,kIAAA,cAAc,OAAA;AACd,gJAAA,4BAA4B,OAAA;AAC5B,+HAAA,WAAW,OAAA;AACX,oJAAA,gCAAgC,OAAA;AAElC,yEAEyC;AADvC,6IAAA,oCAAoC,OAAA;AAAE,2HAAA,kBAAkB,OAAA;AAE1D,yEAKyC;AAJvC,0HAAA,iBAAiB,OAAA;AACjB,4HAAA,mBAAmB,OAAA;AACnB,uHAAA,cAAc,OAAA;AACd,2HAAA,kBAAkB,OAAA;AAEpB,qFAG+C;AAF7C,uIAAA,UAAU,OAA4B;AACtC,mJAAA,yBAAyB,OAAwC;AAGnE,gBAAgB;AAChB,mEAaqC;AAJnC,mHAAA,YAAY,OAAA;AAKd,+CAkC2B;AAjCzB,6HAAA,gCAAgC,OAAA;AAChC,+HAAA,kCAAkC,OAAA;AAClC,wGAAA,WAAW,OAAA;AACX,mHAAA,sBAAsB,OAAA;AACtB,+GAAA,kBAAkB,OAAA;AAOlB,yGAAA,YAAY,OAAA;AACZ,+GAAA,kBAAkB,OAAA;AAClB,uHAAA,0BAA0B,OAAA;AAC1B,+GAAA,kBAAkB,OAAA;AAClB,uHAAA,0BAA0B,OAAA;AAC1B,gGAAA,GAAG,OAAA;AAeH,uGAAA,UAAU,OAAA;AACV,yGAAA,YAAY,OAAA;AAWd,kBAAkB;AAClB,+CAAuE;AAA/D,gHAAA,oBAAoB,OAAA;AAAE,yGAAA,aAAa,OAAA;AAC3C,iDAAmL;AAA3K,yGAAA,YAAY,OAAA;AAAE,sHAAA,yBAAyB,OAAA;AAAE,6HAAA,gCAAgC,OAAA;AAAE,oHAAA,uBAAuB,OAAA;AAAE,8GAAA,iBAAiB,OAAA;AAAE,oHAAA,uBAAuB,OAAA;AACtJ,mEAAuF;AAA/E,wHAAA,kBAAkB,OAAA;AAAE,2HAAA,qBAAqB,OAAA;AACjD,mDAA2D;AAAnD,yHAAA,OAAO,OAAc;AAC7B,mDAAkF;AAA1E,oHAAA,sBAAsB,OAAA;AAAE,kHAAA,oBAAoB,OAAA;AACpD,iDAA0D;AAAlD,gHAAA,mBAAmB,OAAA"}
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import { DataImportFileUpload, UnknownMeasurementsBulk } from '../types/oht.types';
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import { DataImportFileUpload, UnknownMeasurementsBulk, Measurement, UnknownMeasurement } from '../types/oht.types';
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import { UnknownUnits } from '../types/custom-parser.types';
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/**
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* Posts report preview data (measurements and unknownMeasurements) to OHT Core API.
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* Uses the shared makeApiCallWithRetry helper (Basic auth) from oht-custom-parser-lib.
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*/
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declare function postReportPreviewToCore(reportPreviewId: string, measurements: Measurement[], unknownMeasurements: UnknownMeasurement[], filename: string, ohtCoreApiKey: string): Promise<void>;
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declare function postDataImportFileUploadToCore(dataImportFileUpload: DataImportFileUpload, unknownMeasurements: UnknownMeasurementsBulk, unknownUnits: UnknownUnits[], rejectedStatus: string | undefined, rejectReason: string | undefined, isReportParsedCorrectly: boolean, filename: string, ohtCoreApiKey: string): Promise<DataImportFileUpload | null>;
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export { postDataImportFileUploadToCore };
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export { postDataImportFileUploadToCore, postReportPreviewToCore };
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@@ -4,6 +4,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
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};
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Object.defineProperty(exports, "__esModule", { value: true });
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exports.postDataImportFileUploadToCore = postDataImportFileUploadToCore;
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exports.postReportPreviewToCore = postReportPreviewToCore;
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const oht_types_1 = require("../types/oht.types");
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const pinoLogger_1 = __importDefault(require("../util-ts/pinoLogger"));
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const logger = (0, pinoLogger_1.default)();
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@@ -12,6 +13,60 @@ const dataUtils_1 = require("../util-ts/dataUtils");
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const apiUtils_1 = require("../util-ts/apiUtils");
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dotenv_1.default.config({ path: `.env.local` });
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const OHT_CORE_URL = process.env.OHT_CORE_URL;
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/**
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* Posts report preview data (measurements and unknownMeasurements) to OHT Core API.
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* Uses the shared makeApiCallWithRetry helper (Basic auth) from oht-custom-parser-lib.
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*/
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async function postReportPreviewToCore(reportPreviewId, measurements, unknownMeasurements, filename, ohtCoreApiKey) {
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if (!OHT_CORE_URL) {
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throw new Error(`ERROR: OHT_CORE_URL is required for report preview, filename: ${filename}`);
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}
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const apiUrl = `${OHT_CORE_URL}/v1/report-preview/${reportPreviewId}`;
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// Always send both arrays, with empty arrays if no data
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const requestBody = {
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status: 'READY',
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measurements: measurements || [],
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unknownMeasurements: unknownMeasurements || [],
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};
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logger.info({
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filename,
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reportPreviewId,
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measurementsCount: (measurements || []).length,
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unknownMeasurementsCount: (unknownMeasurements || []).length,
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request: {
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method: 'POST',
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url: apiUrl,
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body: requestBody,
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},
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}, `postReportPreviewToCore: Sending report preview to OHT Core API (${(measurements || []).length} measurements, ${(unknownMeasurements || []).length} unknownMeasurements), filename: ${filename}`);
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try {
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const response = await (0, apiUtils_1.makeApiCallWithRetry)('post', apiUrl, requestBody, ohtCoreApiKey);
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logger.info({
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filename,
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reportPreviewId,
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measurementsCount: (measurements || []).length,
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unknownMeasurementsCount: (unknownMeasurements || []).length,
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response: response?.data,
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}, `postReportPreviewToCore: Successfully sent report preview to OHT Core API (${(measurements || []).length} measurements, ${(unknownMeasurements || []).length} unknownMeasurements), filename: ${filename}`);
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}
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catch (apiError) {
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const errorDetails = (0, apiUtils_1.parseErrorObj)(apiError);
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const httpResponse = errorDetails.responseData;
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logger.error({
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filename,
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reportPreviewId,
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measurementsCount: (measurements || []).length,
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unknownMeasurementsCount: (unknownMeasurements || []).length,
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errorType: apiError instanceof Error ? apiError.constructor.name : typeof apiError,
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errorMessage: apiError instanceof Error ? apiError.message : String(apiError),
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errorDetails,
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httpResponse,
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errorStack: apiError instanceof Error ? apiError.stack : undefined,
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}, `postReportPreviewToCore: Failed to send report preview to OHT Core API, filename: ${filename}`);
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// Re-throw so the caller can handle it
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throw apiError;
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}
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}
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async function postDataImportFileUploadToCore(dataImportFileUpload, unknownMeasurements, unknownUnits, rejectedStatus, rejectReason, isReportParsedCorrectly, filename, ohtCoreApiKey) {
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let status = isReportParsedCorrectly
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? oht_types_1.DataImportFileUploadStatus.PROCESSED
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{"version":3,"file":"reportCreator.service.js","sourceRoot":"","sources":["../../service/reportCreator.service.ts"],"names":[],"mappings":";;;;;
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