Fixed CDS Extractor

Author: Dtphelan1

test/extractors/CSVCancerDiseaseStatusExtractor.test.js

@@ -1,8 +1,10 @@
 const path = require('path');
 const _ = require('lodash');
 const { CSVCancerDiseaseStatusExtractor } = require('../../src/extractors');
+const { getPatientFromContext } = require('../../src/helpers/contextUtils');
 const exampleCSVDiseaseStatusModuleResponse = require('./fixtures/csv-cancer-disease-status-module-response.json');
 const exampleCSVDiseaseStatusBundle = require('./fixtures/csv-cancer-disease-status-bundle.json');
+const MOCK_CONTEXT = require('./fixtures/context-with-patient.json');
 
 // Constants for tests
 const MOCK_PATIENT_MRN = 'pat-mrn-1'; // linked to values in example-module-response above
@@ -25,7 +27,7 @@ const csvModuleSpy = jest.spyOn(csvModule, 'get');
 describe('CSVCancerDiseaseStatusExtractor', () => {
   describe('joinAndReformatData', () => {
     test('should join data appropriately and throw errors when missing required properties', () => {
-      const expectedErrorString = 'DiseaseStatusData missing an expected property: mrn, conditionId, diseaseStatusCode, and dateOfObservation are required.';
+      const expectedErrorString = 'DiseaseStatusData missing an expected property: conditionId, diseaseStatusCode, and dateOfObservation are required.';
       const localData = _.cloneDeep(exampleCSVDiseaseStatusModuleResponse);
       // Test that valid data works fine
       expect(csvCancerDiseaseStatusExtractor.joinAndReformatData(exampleCSVDiseaseStatusModuleResponse)).toEqual(expect.anything());
@@ -36,7 +38,7 @@ describe('CSVCancerDiseaseStatusExtractor', () => {
       // Only including required properties is valid
       expect(csvCancerDiseaseStatusExtractor.joinAndReformatData(localData)).toEqual(expect.anything());
 
-      const requiredProperties = ['mrn', 'conditionId', 'diseaseStatusCode', 'dateOfObservation'];
+      const requiredProperties = ['conditionId', 'diseaseStatusCode', 'dateOfObservation'];
 
       // Removing each required property should throw an error
       requiredProperties.forEach((key) => {
@@ -50,7 +52,7 @@ describe('CSVCancerDiseaseStatusExtractor', () => {
   describe('get', () => {
     test('should return bundle with Observation', async () => {
       csvModuleSpy.mockReturnValue(exampleCSVDiseaseStatusModuleResponse);
-      const data = await csvCancerDiseaseStatusExtractor.get({ mrn: MOCK_PATIENT_MRN });
+      const data = await csvCancerDiseaseStatusExtractor.get({ mrn: MOCK_PATIENT_MRN, context: MOCK_CONTEXT });
       expect(data.resourceType).toEqual('Bundle');
       expect(data.type).toEqual('collection');
       expect(data.entry).toBeDefined();
@@ -60,7 +62,7 @@ describe('CSVCancerDiseaseStatusExtractor', () => {
 
     test('should return empty bundle when no data available from module', async () => {
       csvModuleSpy.mockReturnValue([]);
-      const data = await csvCancerDiseaseStatusExtractor.get({ mrn: MOCK_PATIENT_MRN });
+      const data = await csvCancerDiseaseStatusExtractor.get({ mrn: MOCK_PATIENT_MRN, context: MOCK_CONTEXT });
       expect(data.resourceType).toEqual('Bundle');
       expect(data.type).toEqual('collection');
       expect(data.entry).toBeDefined();

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

@@ -3,10 +3,10 @@
   "type": "collection",
   "entry": [
     {
-      "fullUrl": "urn:uuid:d1d13594c371179797ce1a58884f714624d5b1782c4775f0fa303d78e943d64c",
+      "fullUrl": "urn:uuid:4b9e9b5a8db529782cd9e89b68c6a3fac408d2195f025691a3f2850cab18057f",
       "resource": {
         "resourceType": "Observation",
-        "id": "d1d13594c371179797ce1a58884f714624d5b1782c4775f0fa303d78e943d64c",
+        "id": "4b9e9b5a8db529782cd9e89b68c6a3fac408d2195f025691a3f2850cab18057f",
         "meta": {
           "profile": [
             "http://hl7.org/fhir/us/mcode/StructureDefinition/mcode-cancer-disease-status"
@@ -40,7 +40,7 @@
           }
         ],
         "subject": {
-          "reference": "urn:uuid:pat-mrn-1",
+          "reference": "urn:uuid:mrn-1",
           "type": "Patient"
         },
         "effectiveDateTime": "2019-12-02",
@@ -53,25 +53,25 @@
             }
           ]
         },
-        "extension" : [
+        "extension": [
           {
-            "url" : "http://hl7.org/fhir/us/mcode/StructureDefinition/mcode-evidence-type",
-            "valueCodeableConcept" : {
-              "coding" : [
+            "url": "http://hl7.org/fhir/us/mcode/StructureDefinition/mcode-evidence-type",
+            "valueCodeableConcept": {
+              "coding": [
                 {
-                  "system" : "http://snomed.info/sct",
+                  "system": "http://snomed.info/sct",
                   "display": "imaging",
                   "code": "363679005"
                 }
               ]
             }
           },
           {
-            "url" : "http://hl7.org/fhir/us/mcode/StructureDefinition/mcode-evidence-type",
-            "valueCodeableConcept" : {
-              "coding" : [
+            "url": "http://hl7.org/fhir/us/mcode/StructureDefinition/mcode-evidence-type",
+            "valueCodeableConcept": {
+              "coding": [
                 {
-                  "system" : "http://snomed.info/sct",
+                  "system": "http://snomed.info/sct",
                   "display": "pathology",
                   "code": "252416005"
                 }