npm - @openhealth/oht-custom-parser-lib - Versions diffs - 0.2.47 → 0.2.49 - Mend

@openhealth/oht-custom-parser-lib 0.2.47 → 0.2.49

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 (6) hide show

package/dist/service/ohtMeasurementsExtractor.service.d.ts +2 -0
package/dist/service/ohtMeasurementsExtractor.service.js +19 -8
package/dist/service/ohtMeasurementsExtractor.service.js.map +1 -1
package/dist/types/oht.types.d.ts +3 -0
package/dist/types/oht.types.js.map +1 -1
package/package.json +1 -1

package/dist/service/ohtMeasurementsExtractor.service.d.ts CHANGED Viewed

@@ -3,6 +3,8 @@ import { Biomarker, BiomarkerValueType, Measurement, MeasurementValueComparator,
 declare function extractUnit(unitExtraction: UnitExtraction | undefined, rawData: any, ohtBiomarker: Biomarker): {
     unit: string;
     isUnitParsedCorrectly: boolean;
+    originalUnit: string;
+    isArbitraryUnit: boolean;
 };
 declare function extractReferenceAnnotation(labToOhtMapper: LabToOhtMapper, rawExam: any, patientInfo: PatientInfo, documentDate?: Date, exams?: Exam[]): string;
 declare const getRangeFromPositionAndRegex: (rangeExtraction: RangeExtraction, rawData: any) => {

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

@@ -22,12 +22,14 @@ const OHT_CORE_URL = process.env.OHT_CORE_URL;
 let filename = '';
 function extractUnit(unitExtraction, rawData, ohtBiomarker) {
     if (!(0, dataUtils_1.isBiomarkerValueNumerical)(ohtBiomarker)) {
-        return { unit: "None", isUnitParsedCorrectly: true };
+        return { unit: "None", isUnitParsedCorrectly: true, originalUnit: "", isArbitraryUnit: false };
     }
+    const isArbitraryUnit = ohtBiomarker.acf.standardUnitArbUnitLogic === 'default';
+    let originalUnit = '';
     // If there's a function to extract the unit, use it
     if (unitExtraction && unitExtraction?.extractionFunc) {
         const extractedUnitExtraction = unitExtraction.extractionFunc(rawData);
-        return { unit: extractedUnitExtraction ?? '', isUnitParsedCorrectly: !!extractedUnitExtraction };
+        return { unit: extractedUnitExtraction ?? '', isUnitParsedCorrectly: !!extractedUnitExtraction, originalUnit: extractedUnitExtraction ?? '', isArbitraryUnit };
     }
     const unit = (0, dataUtils_1.extractValue)(rawData, unitExtraction?.unitPosition);
     let unitLowerCase = unit?.toLowerCase();
@@ -38,33 +40,40 @@ function extractUnit(unitExtraction, rawData, ohtBiomarker) {
         ...ohtBiomarker.acf?.alternativeUnits
             ?.map((bmAlternative) => bmAlternative.name.toLowerCase()) ?? []
     ];
+    // If the biomarker uses an arbitrary unit, return standard unit and set the original unit as the unit extracted from the data
+    if (isArbitraryUnit) {
+        originalUnit = unit;
+        return { unit: standardUnit, isUnitParsedCorrectly: true, originalUnit: originalUnit, isArbitraryUnit: isArbitraryUnit };
+    }
     // First test if the biomarker has the unit explicit in the 'unity' field
     const allUnitContainsJsonUnit = allBmOhtUnits.includes(unitLowerCase);
     if (unitLowerCase?.length > 0 && allUnitContainsJsonUnit) {
         return {
             unit: unit?.replaceAll(/ /g, ''),
-            isUnitParsedCorrectly: true
+            isUnitParsedCorrectly: true,
+            originalUnit: originalUnit,
+            isArbitraryUnit: isArbitraryUnit
         };
     }
     // Check if there are any Synonym configured
     const allUnitContainsJsonUnitSynonyms = allBmOhtUnits.includes(custom_parser_types_1.unitSynonyms[unitLowerCase]?.toLowerCase());
     if (unitLowerCase?.length > 0 && allUnitContainsJsonUnitSynonyms) {
-        return { unit: custom_parser_types_1.unitSynonyms[unitLowerCase], isUnitParsedCorrectly: true };
+        return { unit: custom_parser_types_1.unitSynonyms[unitLowerCase], isUnitParsedCorrectly: true, originalUnit: originalUnit, isArbitraryUnit: isArbitraryUnit };
     }
     if (unitExtraction?.predefinedUnit) {
         const allUnitContainsUnitFromOhtMap = allBmOhtUnits.includes(unitExtraction.predefinedUnit.toLowerCase());
         // If the 'unity' field is not present, try to get the unit from the biomarker map
-        return { unit: unitExtraction?.predefinedUnit, isUnitParsedCorrectly: allUnitContainsUnitFromOhtMap };
+        return { unit: unitExtraction?.predefinedUnit, isUnitParsedCorrectly: allUnitContainsUnitFromOhtMap, originalUnit: originalUnit, isArbitraryUnit: isArbitraryUnit };
     }
     if (unitExtraction?.extractionRegex) {
         const regex = new RegExp(unitExtraction.extractionRegex);
         const match = rawData.match(regex);
         const allUnitContainsUnitMatch = allBmOhtUnits.includes(match?.[1]?.toLowerCase());
         if (match?.[1] && allUnitContainsUnitMatch) {
-            return { unit: match?.[1], isUnitParsedCorrectly: true };
+            return { unit: match?.[1], isUnitParsedCorrectly: true, originalUnit: originalUnit, isArbitraryUnit: isArbitraryUnit };
         }
     }
-    return { unit: '', isUnitParsedCorrectly: false };
+    return { unit: '', isUnitParsedCorrectly: false, originalUnit: '', isArbitraryUnit: false };
 }
 function extractReferenceAnnotation(labToOhtMapper, rawExam, patientInfo, documentDate, exams) {
     const annotationExtractionFunc = labToOhtMapper?.referenceAsAnnotation?.extractionFunc;
@@ -317,7 +326,7 @@ async function ohtMeasurementsExtractor(labToOhtContract, exams, ohtCoreApiKey)
             const bmInfo = ohtBiomarker?.acf?.shortName ?
                 `name:${ohtBiomarker.acf.shortName}, bmId:${labToOhtMapper.ohtBmId}, labKey:${labToOhtMapper.labKey}` :
                 `bmId:${labToOhtMapper.ohtBmId}, labKey:${labToOhtMapper.labKey}`;
-            const { unit, isUnitParsedCorrectly } = extractUnit(labToOhtMapper.unitExtraction, rawExamObj, ohtBiomarker);
+            const { unit, isUnitParsedCorrectly, originalUnit, isArbitraryUnit } = extractUnit(labToOhtMapper.unitExtraction, rawExamObj, ohtBiomarker);
             if (!isUnitParsedCorrectly) {
                 logger.warn({ labToOhtMapper }, `Unit not extracted correctly for "${labToOhtMapper.ohtBmId}|${labToOhtMapper.labKey}", filename: ${filename}`);
                 labToOhtContract.errorMessages.push({
@@ -401,6 +410,8 @@ async function ohtMeasurementsExtractor(labToOhtContract, exams, ohtCoreApiKey)
                 minNormalValue: from,
                 maxNormalValue: to,
                 unit,
+                originalUnit,
+                isArbitraryUnit,
                 material,
                 method,
                 isDigitalizationApproved: isMeasurementCorrectlyParsed,

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

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package/dist/types/oht.types.d.ts CHANGED Viewed

@@ -118,6 +118,8 @@ export interface Measurement {
     maxNormalValue: number | null;
     rangeAnnotation?: string;
     unit: string;
+    originalUnit: string;
+    isArbitraryUnit: boolean;
     showVisualisationIfAnnotated: boolean;
     score?: number;
     method?: string;
@@ -298,6 +300,7 @@ export type BiomarkerAcf = {
     reviewStatus: string;
     workPrio: string;
     workingOrder: number;
+    standardUnitArbUnitLogic: string;
 };
 export declare enum GoLiveStatus {
     Green = "green",

package/dist/types/oht.types.js.map CHANGED Viewed

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

@@ -1,6 +1,6 @@
 {
   "name": "@openhealth/oht-custom-parser-lib",
-  "version": "0.2.47",
+  "version": "0.2.49",
   "description": "Shared nodejs lib with with reusable functions",
   "main": "dist/index.js",
   "types": "dist/index.d.ts",