npm - @openhealth/oht-custom-parser-lib - Versions diffs - 0.2.71 → 0.2.73 - Mend

@openhealth/oht-custom-parser-lib 0.2.71 → 0.2.73

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Files changed (12) hide show

package/dist/index.d.ts +1 -1
package/dist/index.js +3 -2
package/dist/index.js.map +1 -1
package/dist/service/ohtMeasurementsExtractor.service.js +2 -3
package/dist/service/ohtMeasurementsExtractor.service.js.map +1 -1
package/dist/service/reportCreator.service.d.ts +7 -2
package/dist/service/reportCreator.service.js +55 -0
package/dist/service/reportCreator.service.js.map +1 -1
package/dist/util-ts/dataUtils.d.ts +2 -1
package/dist/util-ts/dataUtils.js +8 -0
package/dist/util-ts/dataUtils.js.map +1 -1
package/package.json +1 -1

package/dist/index.d.ts CHANGED Viewed

@@ -1,4 +1,4 @@
-export { postDataImportFileUploadToCore } from './service/reportCreator.service';
+export { postDataImportFileUploadToCore, postReportPreviewToCore } from './service/reportCreator.service';
 export { parseExternalPatientId, parseGender, isPatientAgeValid, handleRejection, queryFileUploadsWithFilters, postFileUploadSetStatus, DigitalizationUpdateFields } from './service/auxiliaryFunctions.service';
 export { ohtMeasurementsExtractor, checkValueForPlausibleValues, extractReferenceRanges, extractReferenceAnnotation, parseExamValue, getRangeFromPositionAndRegex, extractUnit, extractValueFromGreaterLowerThan } from './service/ohtMeasurementsExtractor.service';
 export { getSlackFileIssueNotificationMessage, sendMessageToSlack } from './service/slackMessages.service';

package/dist/index.js CHANGED Viewed

@@ -3,11 +3,12 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.getLowerThanPatterns = 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.postDataImportFileUploadToCore = void 0;
-exports.getMappedBiomarkers = void 0;
+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;
+exports.getMappedBiomarkers = exports.getLowerThanPatterns = void 0;
 // ### SERVICES ###
 var reportCreator_service_1 = require("./service/reportCreator.service");
 Object.defineProperty(exports, "postDataImportFileUploadToCore", { enumerable: true, get: function () { return reportCreator_service_1.postDataImportFileUploadToCore; } });
+Object.defineProperty(exports, "postReportPreviewToCore", { enumerable: true, get: function () { return reportCreator_service_1.postReportPreviewToCore; } });
 var auxiliaryFunctions_service_1 = require("./service/auxiliaryFunctions.service");
 Object.defineProperty(exports, "parseExternalPatientId", { enumerable: true, get: function () { return auxiliaryFunctions_service_1.parseExternalPatientId; } });
 Object.defineProperty(exports, "parseGender", { enumerable: true, get: function () { return auxiliaryFunctions_service_1.parseGender; } });

package/dist/index.js.map CHANGED Viewed

	@@ -1 +1 @@
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package/dist/service/ohtMeasurementsExtractor.service.js CHANGED Viewed

@@ -495,9 +495,8 @@ async function ohtMeasurementsExtractor(labToOhtContract, exams, transformationR
                 });
                 isMeasurementCorrectlyParsed = false;
             }
-            if (valueType === oht_types_1.BiomarkerValueType.NUMERICAL &&
-                typeof alphanumericalValue === 'string' && /^[*-]+$/.test(alphanumericalValue.trim())) {
-                const alphanumericalValueTrimmed = alphanumericalValue.trim();
+            if ((0, dataUtils_1.isNumericalWithoutValidResult)(valueType, numberValue, alphanumericalValue)) {
+                const alphanumericalValueTrimmed = alphanumericalValue?.trim() ?? '';
                 const unknownMeasurement = {
                     labKey: labToOhtMapper.labKey,
                     biomarkerName: examObj.description ?? '',

package/dist/service/ohtMeasurementsExtractor.service.js.map CHANGED Viewed

	@@ -1 +1 @@
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package/dist/service/reportCreator.service.d.ts CHANGED Viewed

@@ -1,4 +1,9 @@
-import { DataImportFileUpload, UnknownMeasurementsBulk } from '../types/oht.types';
+import { DataImportFileUpload, UnknownMeasurementsBulk, Measurement, UnknownMeasurement } from '../types/oht.types';
 import { UnknownUnits } from '../types/custom-parser.types';
+/**
+ * Posts report preview data (measurements and unknownMeasurements) to OHT Core API.
+ * Uses the shared makeApiCallWithRetry helper (Basic auth) from oht-custom-parser-lib.
+ */
+declare function postReportPreviewToCore(reportPreviewId: string, measurements: Measurement[], unknownMeasurements: UnknownMeasurement[], filename: string, ohtCoreApiKey: string): Promise<void>;
 declare function postDataImportFileUploadToCore(dataImportFileUpload: DataImportFileUpload, unknownMeasurements: UnknownMeasurementsBulk, unknownUnits: UnknownUnits[], rejectedStatus: string | undefined, rejectReason: string | undefined, isReportParsedCorrectly: boolean, filename: string, ohtCoreApiKey: string): Promise<DataImportFileUpload | null>;
-export { postDataImportFileUploadToCore };
+export { postDataImportFileUploadToCore, postReportPreviewToCore };

package/dist/service/reportCreator.service.js CHANGED Viewed

@@ -4,6 +4,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
 };
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.postDataImportFileUploadToCore = postDataImportFileUploadToCore;
+exports.postReportPreviewToCore = postReportPreviewToCore;
 const oht_types_1 = require("../types/oht.types");
 const pinoLogger_1 = __importDefault(require("../util-ts/pinoLogger"));
 const logger = (0, pinoLogger_1.default)();
@@ -12,6 +13,60 @@ const dataUtils_1 = require("../util-ts/dataUtils");
 const apiUtils_1 = require("../util-ts/apiUtils");
 dotenv_1.default.config({ path: `.env.local` });
 const OHT_CORE_URL = process.env.OHT_CORE_URL;
+/**
+ * Posts report preview data (measurements and unknownMeasurements) to OHT Core API.
+ * Uses the shared makeApiCallWithRetry helper (Basic auth) from oht-custom-parser-lib.
+ */
+async function postReportPreviewToCore(reportPreviewId, measurements, unknownMeasurements, filename, ohtCoreApiKey) {
+    if (!OHT_CORE_URL) {
+        throw new Error(`ERROR: OHT_CORE_URL is required for report preview, filename: ${filename}`);
+    }
+    const apiUrl = `${OHT_CORE_URL}/v1/report-preview/${reportPreviewId}`;
+    // Always send both arrays, with empty arrays if no data
+    const requestBody = {
+        status: 'READY',
+        measurements: measurements || [],
+        unknownMeasurements: unknownMeasurements || [],
+    };
+    logger.info({
+        filename,
+        reportPreviewId,
+        measurementsCount: (measurements || []).length,
+        unknownMeasurementsCount: (unknownMeasurements || []).length,
+        request: {
+            method: 'POST',
+            url: apiUrl,
+            body: requestBody,
+        },
+    }, `postReportPreviewToCore: Sending report preview to OHT Core API (${(measurements || []).length} measurements, ${(unknownMeasurements || []).length} unknownMeasurements), filename: ${filename}`);
+    try {
+        const response = await (0, apiUtils_1.makeApiCallWithRetry)('post', apiUrl, requestBody, ohtCoreApiKey);
+        logger.info({
+            filename,
+            reportPreviewId,
+            measurementsCount: (measurements || []).length,
+            unknownMeasurementsCount: (unknownMeasurements || []).length,
+            response: response?.data,
+        }, `postReportPreviewToCore: Successfully sent report preview to OHT Core API (${(measurements || []).length} measurements, ${(unknownMeasurements || []).length} unknownMeasurements), filename: ${filename}`);
+    }
+    catch (apiError) {
+        const errorDetails = (0, apiUtils_1.parseErrorObj)(apiError);
+        const httpResponse = errorDetails.responseData;
+        logger.error({
+            filename,
+            reportPreviewId,
+            measurementsCount: (measurements || []).length,
+            unknownMeasurementsCount: (unknownMeasurements || []).length,
+            errorType: apiError instanceof Error ? apiError.constructor.name : typeof apiError,
+            errorMessage: apiError instanceof Error ? apiError.message : String(apiError),
+            errorDetails,
+            httpResponse,
+            errorStack: apiError instanceof Error ? apiError.stack : undefined,
+        }, `postReportPreviewToCore: Failed to send report preview to OHT Core API, filename: ${filename}`);
+        // Re-throw so the caller can handle it
+        throw apiError;
+    }
+}
 async function postDataImportFileUploadToCore(dataImportFileUpload, unknownMeasurements, unknownUnits, rejectedStatus, rejectReason, isReportParsedCorrectly, filename, ohtCoreApiKey) {
     let status = isReportParsedCorrectly
         ? oht_types_1.DataImportFileUploadStatus.PROCESSED

package/dist/service/reportCreator.service.js.map CHANGED Viewed

	@@ -1 +1 @@
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package/dist/util-ts/dataUtils.d.ts CHANGED Viewed

@@ -1,4 +1,4 @@
-import { UnknownMeasurementsBulk, AnnotationLabKey } from '../types/oht.types';
+import { UnknownMeasurementsBulk, AnnotationLabKey, BiomarkerValueType } from '../types/oht.types';
 import { SynonymUnit, UnknownUnits } from '../types/custom-parser.types';
 /**
  * Resolve unit from synonym units following priority:
@@ -47,3 +47,4 @@ export declare function processAppendedMappings(exams: any[], labKeys: Annotatio
         used: boolean;
     }>;
 };
+export declare function isNumericalWithoutValidResult(valueType: BiomarkerValueType, numberValue: number | null, alphanumericalValue: string | null): boolean;

package/dist/util-ts/dataUtils.js CHANGED Viewed

@@ -8,6 +8,8 @@ exports.resolveUnitFromSynonyms = resolveUnitFromSynonyms;
 exports.isBiomarkerValueNumerical = isBiomarkerValueNumerical;
 exports.isBiomarkerExternalNoVisualRange = isBiomarkerExternalNoVisualRange;
 exports.processAppendedMappings = processAppendedMappings;
+exports.isNumericalWithoutValidResult = isNumericalWithoutValidResult;
+const oht_types_1 = require("../types/oht.types");
 const apiUtils_1 = require("./apiUtils");
 const pinoLogger_1 = __importDefault(require("./pinoLogger"));
 const logger = (0, pinoLogger_1.default)();
@@ -358,4 +360,10 @@ function findChildObjectWithValue(parentObj, targetValue) {
     }
     return null;
 }
+function isNumericalWithoutValidResult(valueType, numberValue, alphanumericalValue) {
+    if (valueType === oht_types_1.BiomarkerValueType.NUMERICAL && numberValue === null && (alphanumericalValue === null || typeof alphanumericalValue === 'string')) {
+        return true;
+    }
+    return false;
+}
 //# sourceMappingURL=dataUtils.js.map

package/dist/util-ts/dataUtils.js.map CHANGED Viewed

	@@ -1 +1 @@
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1	+ 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package/package.json CHANGED Viewed

@@ -1,6 +1,6 @@
 {
   "name": "@openhealth/oht-custom-parser-lib",
-  "version": "0.2.71",
+  "version": "0.2.73",
   "description": "Shared nodejs lib with with reusable functions",
   "main": "dist/index.js",
   "types": "dist/index.d.ts",