Merge pull request #183 from mcode/cds-codes-update

CDS 2022 Value Set Updates

Author: julianxcarter

src/extractors/CSVCancerDiseaseStatusExtractor.js

@@ -36,7 +36,7 @@ class CSVCancerDiseaseStatusExtractor extends BaseCSVExtractor {
         status: observationStatus || 'final',
         value: {
           code: diseaseStatusCode,
-          system: 'http://snomed.info/sct',
+          system: diseaseStatusCode.includes('USCRS') ? 'http://hl7.org/fhir/us/mcode/CodeSystem/snomed-requested-cs' : 'http://snomed.info/sct',
           display: diseaseStatusText || getDiseaseStatusDisplay(diseaseStatusCode, this.implementation),
         },
         subject: {

src/helpers/lookups/diseaseStatusLookup.js

@@ -1,12 +1,17 @@
 const { createInvertedLookup, createLowercaseLookup } = require('../lookupUtils');
 
-// Code mapping is based on current values at https://www.hl7.org/fhir/us/mcode/2021May/ValueSet-mcode-condition-status-trend-vs.html
+// Code mapping is based on current values at https://hl7.org/fhir/us/mcode/ValueSet-mcode-condition-status-trend-vs.html
+// along with legacy codes included at https://www.hl7.org/fhir/us/mcode/2021May/ValueSet-mcode-condition-status-trend-vs.html
 const mcodeDiseaseStatusTextToCodeLookup = {
-  'No abnormality detected (finding)': '281900007',
+  'No abnormality detected (finding)': '281900007', // No longer in the Vs, included for backwards compatibility
   'Patient condition improved (finding)': '268910001',
   'Patient\'s condition stable (finding)': '359746009',
   'Patient\'s condition worsened (finding)': '271299001',
   'Patient condition undetermined (finding)': '709137006',
+  // TODO: These are placeholder codes representing codes that are requested additions to the SNOMED vocabulary
+  // They will likely need to be updated in future versions of mCODE
+  'Cancer in complete remission(finding)': 'USCRS-352236',
+  'Cancer in partial remission (finding)': 'USCRS-352237',
 };
 const mcodeDiseaseStatusCodeToTextLookup = createInvertedLookup(mcodeDiseaseStatusTextToCodeLookup);
 

test/extractors/fixtures/csv-cancer-disease-status-bundle.json

@@ -3,10 +3,10 @@
   "type": "collection",
   "entry": [
     {
-      "fullUrl": "urn:uuid:4b9e9b5a8db529782cd9e89b68c6a3fac408d2195f025691a3f2850cab18057f",
+      "fullUrl": "urn:uuid:e8293a0d18fb20d6b1749009032a26f2d34d8418369c87c8345f6c988fa0fc33",
       "resource": {
         "resourceType": "Observation",
-        "id": "4b9e9b5a8db529782cd9e89b68c6a3fac408d2195f025691a3f2850cab18057f",
+        "id": "e8293a0d18fb20d6b1749009032a26f2d34d8418369c87c8345f6c988fa0fc33",
         "meta": {
           "profile": [
             "http://hl7.org/fhir/us/mcode/StructureDefinition/mcode-cancer-disease-status"
@@ -47,9 +47,9 @@
         "valueCodeableConcept": {
           "coding": [
             {
-              "system": "http://snomed.info/sct",
-              "code": "268910001",
-              "display": "Patient condition improved (finding)"
+              "system": "http://hl7.org/fhir/us/mcode/CodeSystem/snomed-requested-cs",
+              "code": "USCRS-352236",
+              "display": "Cancer in complete remission(finding)"
             }
           ]
         },

test/extractors/fixtures/csv-cancer-disease-status-module-response.json

@@ -2,7 +2,7 @@
   {
     "mrn": "mrn-1",
     "conditionid": "cond-1",
-    "diseasestatuscode": "268910001",
+    "diseasestatuscode": "USCRS-352236",
     "dateofobservation": "2019-12-02",
     "evidence": "363679005|252416005",
     "observationstatus": "amended"

test/helpers/diseaseStatusUtils.test.js

@@ -13,6 +13,8 @@ const mcodeDiseaseStatusTextToCodeLookup = {
   'Patient\'s condition stable (finding)': '359746009',
   'Patient\'s condition worsened (finding)': '271299001',
   'Patient condition undetermined (finding)': '709137006',
+  'Cancer in complete remission(finding)': 'USCRS-352236',
+  'Cancer in partial remission (finding)': 'USCRS-352237',
 };
 
 // Code mapping is based on initial values still in use by icare implementors