@aehrc/smart-forms-renderer 0.35.4 → 0.35.6

package/lib/utils/questionnaireStoreUtils/insertAnswerOptions.d.ts

@@ -0,0 +1,7 @@
+import type { Questionnaire, QuestionnaireItemAnswerOption } from 'fhir/r4';
+/**
+ * Filter x-fhir-query variables from questionnaire's extensions needed for population
+ *
+ * @author Sean Fong
+ */
+export declare function insertCompleteAnswerOptionsIntoQuestionnaire(questionnaire: Questionnaire, completeAnswerOptions: Record<string, QuestionnaireItemAnswerOption[]>): Questionnaire;

package/lib/utils/questionnaireStoreUtils/insertAnswerOptions.js

@@ -0,0 +1,44 @@
+/*
+ * Copyright 2024 Commonwealth Scientific and Industrial Research
+ * Organisation (CSIRO) ABN 41 687 119 230.
+ *
+ * Licensed under the Apache License, Version 2.0 (the "License");
+ * you may not use this file except in compliance with the License.
+ * You may obtain a copy of the License at
+ *
+ *     http://www.apache.org/licenses/LICENSE-2.0
+ *
+ * Unless required by applicable law or agreed to in writing, software
+ * distributed under the License is distributed on an "AS IS" BASIS,
+ * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+ * See the License for the specific language governing permissions and
+ * limitations under the License.
+ */
+/**
+ * Filter x-fhir-query variables from questionnaire's extensions needed for population
+ *
+ * @author Sean Fong
+ */
+export function insertCompleteAnswerOptionsIntoQuestionnaire(questionnaire, completeAnswerOptions) {
+    if (questionnaire.item && questionnaire.item.length > 0) {
+        for (const qItem of questionnaire.item) {
+            insertCompleteAnswerOptionsRecursive(qItem, completeAnswerOptions);
+        }
+    }
+    return questionnaire;
+}
+function insertCompleteAnswerOptionsRecursive(qItem, completeAnswerOptions) {
+    if (qItem.item) {
+        for (const childItem of qItem.item) {
+            insertCompleteAnswerOptionsRecursive(childItem, completeAnswerOptions);
+        }
+    }
+    if (qItem.answerOption) {
+        const options = completeAnswerOptions[qItem.linkId];
+        if (options) {
+            qItem.answerOption = options;
+        }
+    }
+    return;
+}
+//# sourceMappingURL=insertAnswerOptions.js.map

package/lib/utils/questionnaireStoreUtils/insertAnswerOptions.js.map

@@ -0,0 +1 @@
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package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@aehrc/smart-forms-renderer",
-  "version": "0.35.4",
+  "version": "0.35.6",
   "description": "FHIR Structured Data Captured (SDC) rendering engine for Smart Forms",
   "main": "lib/index.js",
   "scripts": {
@@ -27,7 +27,7 @@
   },
   "homepage": "https://github.com/aehrc/smart-forms#readme",
   "dependencies": {
-    "@aehrc/sdc-populate": "^2.2.1",
+    "@aehrc/sdc-populate": "^2.2.2",
     "@iconify/react": "^4.1.1",
     "dayjs": "^1.11.10",
     "deep-diff": "^1.0.2",
@@ -68,7 +68,7 @@
     "@storybook/react-vite": "^8.0.10",
     "@storybook/test": "^8.0.10",
     "@swc/cli": "^0.1.63",
-    "@swc/core": "^1.3.99",
+    "@swc/core": "^1.5.28",
     "@testing-library/jest-dom": "^6.1.2",
     "@testing-library/react": "^14.2.1",
     "@testing-library/react-hooks": "^7.0.2",

package/src/hooks/useStringCalculatedExpression.ts

@@ -49,6 +49,7 @@ function useStringCalculatedExpression(
         return;
       }
 
+      console.log(calcExpression);
       // only update if calculated value is different from current value
       if (
         calcExpression.value !== inputValue &&

package/src/hooks/useValueSetCodings.ts

@@ -138,6 +138,12 @@ function useValueSetCodings(qItem: QuestionnaireItem): {
     const valueSetUrl = qItem.answerValueSet;
     if (!valueSetUrl || codings.length > 0) return;
 
+    //
+    if (valueSetUrl.startsWith('#')) {
+      // FIXME add expand here
+    }
+
+    // Assume answerValueSet is an expandable URL
     const terminologyServerUrl = getTerminologyServerUrl(qItem) ?? defaultTerminologyServerUrl;
     const promise = getValueSetPromise(valueSetUrl, terminologyServerUrl);
     if (promise) {

package/src/interfaces/questionnaireStore.interface.ts

@@ -21,7 +21,7 @@ import type { LaunchContext } from './populate.interface';
 import type { EnableWhenExpressions, EnableWhenItems } from './enableWhen.interface';
 import type { CalculatedExpression } from './calculatedExpression.interface';
 import type { AnswerExpression } from './answerExpression.interface';
-import type { Coding } from 'fhir/r4';
+import type { Coding, QuestionnaireItemAnswerOption } from 'fhir/r4';
 
 export interface QuestionnaireModel {
   itemTypes: Record<string, string>;
@@ -32,6 +32,7 @@ export interface QuestionnaireModel {
   enableWhenExpressions: EnableWhenExpressions;
   calculatedExpressions: Record<string, CalculatedExpression[]>;
   answerExpressions: Record<string, AnswerExpression>;
+  answerOptions: Record<string, QuestionnaireItemAnswerOption[]>;
   processedValueSetCodings: Record<string, Coding[]>;
   processedValueSetUrls: Record<string, string>;
   fhirPathContext: Record<string, any>;

package/src/stores/questionnaireStore.ts

@@ -46,6 +46,7 @@ import { createSelectors } from './selector';
 import { mutateRepeatEnableWhenExpressionInstances } from '../utils/enableWhenExpression';
 import { questionnaireResponseStore } from './questionnaireResponseStore';
 import { createQuestionnaireResponseItemMap } from '../utils/questionnaireResponseStoreUtils/updatableResponseItems';
+import { insertCompleteAnswerOptionsIntoQuestionnaire } from '../utils/questionnaireStoreUtils/insertAnswerOptions';
 
 /**
  * QuestionnaireStore properties and methods
@@ -180,6 +181,13 @@ export const questionnaireStore = createStore<QuestionnaireStoreType>()((set, ge
       terminologyServerUrl
     );
 
+    // Insert answerOptions with displays into questionnaire
+    questionnaire = insertCompleteAnswerOptionsIntoQuestionnaire(
+      questionnaire,
+      questionnaireModel.answerOptions
+    );
+
+    // Initialise form with questionnaire response and properties in questionnaire model
     const {
       initialEnableWhenItems,
       initialEnableWhenLinkedQuestions,

package/src/stories/assets/questionnaires/QPrePopTester.ts

@@ -127,9 +127,43 @@ export const qSelectivePrePopTester: Questionnaire = {
           }
         ]
       }
+    },
+    {
+      resourceType: 'ValueSet',
+      id: 'MedicalHistory',
+      url: 'https://smartforms.csiro.au/ig/ValueSet/MedicalHistory',
+      name: 'MedicalHistory',
+      title: 'Medical History',
+      status: 'draft',
+      experimental: false,
+      description:
+        'The Medical History value set includes values that may be used to represent medical history, operations and hospital admissions.',
+      compose: {
+        include: [
+          {
+            system: 'http://snomed.info/sct',
+            filter: [
+              {
+                property: 'constraint',
+                op: '=',
+                value:
+                  '^32570581000036105|Problem/Diagnosis reference set| OR ^32570141000036105|Procedure foundation reference set|'
+              }
+            ]
+          }
+        ]
+      }
     }
   ],
   extension: [
+    {
+      url: 'http://hl7.org/fhir/StructureDefinition/variable',
+      valueExpression: {
+        name: 'Condition',
+        language: 'application/x-fhir-query',
+        expression: 'Condition?patient={{%patient.id}}'
+      }
+    },
     {
       url: 'http://hl7.org/fhir/uv/sdc/StructureDefinition/sdc-questionnaire-launchContext',
       extension: [
@@ -196,6 +230,89 @@ export const qSelectivePrePopTester: Questionnaire = {
       type: 'choice',
       repeats: false,
       answerValueSet: 'http://hl7.org/fhir/ValueSet/administrative-gender'
+    },
+    {
+      extension: [
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl',
+          valueCodeableConcept: {
+            coding: [
+              {
+                system: 'http://hl7.org/fhir/questionnaire-item-control',
+                code: 'gtable'
+              }
+            ]
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/uv/sdc/StructureDefinition/sdc-questionnaire-itemPopulationContext',
+          valueExpression: {
+            name: 'ConditionRepeat',
+            language: 'text/fhirpath',
+            expression:
+              "%Condition.entry.resource.where(category.coding.exists(code='problem-list-item'))"
+          }
+        }
+      ],
+      linkId: 'medical-history',
+      text: 'Medical history and current problems list',
+      type: 'group',
+      repeats: true,
+      item: [
+        {
+          extension: [
+            {
+              url: 'http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl',
+              valueCodeableConcept: {
+                coding: [
+                  {
+                    system: 'http://hl7.org/fhir/questionnaire-item-control',
+                    code: 'autocomplete'
+                  }
+                ]
+              }
+            },
+            {
+              url: 'http://hl7.org/fhir/uv/sdc/StructureDefinition/sdc-questionnaire-initialExpression',
+              valueExpression: {
+                language: 'text/fhirpath',
+                expression:
+                  "%ConditionRepeat.code.select((coding.where(system='http://snomed.info/sct') | coding.where(system!='http://snomed.info/sct').first() | text ).first())"
+              }
+            }
+          ],
+          linkId: 'medical-history-condition',
+          text: 'Condition',
+          type: 'open-choice',
+          answerValueSet: '#MedicalHistory'
+        },
+        {
+          extension: [
+            {
+              url: 'http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl',
+              valueCodeableConcept: {
+                coding: [
+                  {
+                    system: 'http://hl7.org/fhir/questionnaire-item-control',
+                    code: 'drop-down'
+                  }
+                ]
+              }
+            },
+            {
+              url: 'http://hl7.org/fhir/uv/sdc/StructureDefinition/sdc-questionnaire-initialExpression',
+              valueExpression: {
+                language: 'text/fhirpath',
+                expression: '%ConditionRepeat.clinicalStatus.coding'
+              }
+            }
+          ],
+          linkId: 'medical-history-status',
+          text: 'Clinical Status',
+          type: 'choice',
+          answerValueSet: 'http://hl7.org/fhir/ValueSet/condition-clinical'
+        }
+      ]
     }
   ]
 };

package/src/utils/fhirpathAsyncUtils/test-questionnaire.ts

@@ -0,0 +1,383 @@
+import { Questionnaire } from 'fhir/r4';
+
+const testQuestionnaire: Questionnaire = {
+  resourceType: 'Questionnaire',
+  id: 'CalculatedExpressionCvdRiskCalculatorPrepop',
+  meta: {
+    versionId: '1',
+    lastUpdated: '2024-06-11T10:15:22.026+00:00',
+    source: '#CwlqsoGwV8CY9l7l'
+  },
+  extension: [
+    {
+      url: 'http://hl7.org/fhir/StructureDefinition/variable',
+      valueExpression: {
+        name: 'Condition',
+        language: 'application/x-fhir-query',
+        expression: 'Condition?patient={{%patient.id}}'
+      }
+    },
+    {
+      url: 'http://hl7.org/fhir/StructureDefinition/variable',
+      valueExpression: {
+        name: 'ObsTobaccoSmokingStatus',
+        language: 'application/x-fhir-query',
+        expression: 'Observation?code=72166-2&_count=1&_sort=-date&patient={{%patient.id}}'
+      }
+    },
+    {
+      url: 'http://hl7.org/fhir/StructureDefinition/variable',
+      valueExpression: {
+        name: 'ObsBodyHeight',
+        language: 'application/x-fhir-query',
+        expression: 'Observation?code=8302-2&_count=1&_sort=-date&patient={{%patient.id}}'
+      }
+    },
+    {
+      url: 'http://hl7.org/fhir/StructureDefinition/variable',
+      valueExpression: {
+        name: 'ObsBodyWeight',
+        language: 'application/x-fhir-query',
+        expression: 'Observation?code=29463-7&_count=1&_sort=-date&patient={{%patient.id}}'
+      }
+    },
+    {
+      url: 'http://hl7.org/fhir/StructureDefinition/variable',
+      valueExpression: {
+        name: 'ObsHeadCircumference',
+        language: 'application/x-fhir-query',
+        expression: 'Observation?code=9843-4&_count=1&_sort=-date&patient={{%patient.id}}'
+      }
+    },
+    {
+      url: 'http://hl7.org/fhir/StructureDefinition/variable',
+      valueExpression: {
+        name: 'ObsWaistCircumference',
+        language: 'application/x-fhir-query',
+        expression: 'Observation?code=8280-0&_count=1&_sort=-date&patient={{%patient.id}}'
+      }
+    },
+    {
+      url: 'http://hl7.org/fhir/StructureDefinition/variable',
+      valueExpression: {
+        name: 'ObsBloodPressure',
+        language: 'application/x-fhir-query',
+        expression: 'Observation?code=85354-9&_count=1&_sort=-date&patient={{%patient.id}}'
+      }
+    },
+    {
+      url: 'http://hl7.org/fhir/StructureDefinition/variable',
+      valueExpression: {
+        name: 'ObsHeartRate',
+        language: 'application/x-fhir-query',
+        expression: 'Observation?code=8867-4&_count=1&_sort=-date&patient={{%patient.id}}'
+      }
+    },
+    {
+      url: 'http://hl7.org/fhir/StructureDefinition/variable',
+      valueExpression: {
+        name: 'ObsTotalCholesterol',
+        language: 'application/x-fhir-query',
+        expression: 'Observation?code=14647-2&_count=1&_sort=-date&patient={{%patient.id}}'
+      }
+    },
+    {
+      url: 'http://hl7.org/fhir/StructureDefinition/variable',
+      valueExpression: {
+        name: 'ObsHDLCholesterol',
+        language: 'application/x-fhir-query',
+        expression: 'Observation?code=14646-4&_count=1&_sort=-date&patient={{%patient.id}}'
+      }
+    },
+    {
+      url: 'http://hl7.org/fhir/uv/sdc/StructureDefinition/sdc-questionnaire-launchContext',
+      extension: [
+        {
+          url: 'name',
+          valueCoding: {
+            system: 'http://hl7.org/fhir/uv/sdc/CodeSystem/launchContext',
+            code: 'patient'
+          }
+        },
+        {
+          url: 'type',
+          valueCode: 'Patient'
+        },
+        {
+          url: 'description',
+          valueString: 'The patient that is to be used to pre-populate the form'
+        }
+      ]
+    }
+  ],
+  contained: [
+    {
+      resourceType: 'ValueSet',
+      id: 'MedicalHistory',
+      url: 'https://smartforms.csiro.au/ig/ValueSet/MedicalHistory',
+      name: 'MedicalHistory',
+      title: 'Medical History',
+      status: 'draft',
+      experimental: false,
+      description:
+        'The Medical History value set includes values that may be used to represent medical history, operations and hospital admissions.',
+      compose: {
+        include: [
+          {
+            system: 'http://snomed.info/sct',
+            filter: [
+              {
+                property: 'constraint',
+                op: '=',
+                value:
+                  '^32570581000036105|Problem/Diagnosis reference set| OR ^32570141000036105|Procedure foundation reference set|'
+              }
+            ]
+          }
+        ]
+      }
+    }
+  ],
+  url: 'https://smartforms.csiro.au/docs/sdc/population/calculated-expression-2',
+  version: '0.1.0',
+  name: 'CalculatedExpressionCvdRiskCalculatorPrepop',
+  title: 'Calculated Expression CVD Risk Calculator - Pre-population',
+  status: 'draft',
+  date: '2024-05-01',
+  publisher: 'AEHRC CSIRO',
+  item: [
+    {
+      extension: [
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'female',
+            language: 'text/fhirpath',
+            expression: "iif(item.where(linkId='gender').answer.value.code='female', 1, 0)"
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'age',
+            language: 'text/fhirpath',
+            expression: "item.where(linkId='patient-age').answer.value"
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'cvdAge',
+            language: 'text/fhirpath',
+            expression: 'iif(%age > 74, 74, iif(%age < 35, 35, %age))'
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'systolicBP',
+            language: 'text/fhirpath',
+            expression: "item.where(linkId='systolic-blood-pressure').answer.value"
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'smoker',
+            language: 'text/fhirpath',
+            expression:
+              "iif(item.where(linkId='smoking-status').answer.value.code='77176002', 1, 0)"
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'totalCh',
+            language: 'text/fhirpath',
+            expression: "item.where(linkId='total-cholesterol').answer.value"
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'hdl',
+            language: 'text/fhirpath',
+            expression: "item.where(linkId='hdl-cholesterol').answer.value"
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'diabetes',
+            language: 'text/fhirpath',
+            expression: "iif(item.where(linkId='has-diabetes').answer.value = true,1,0)"
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'ecgLvh',
+            language: 'text/fhirpath',
+            expression: "iif(item.where(linkId='ecg-lvh').answer.value = true,1,0)"
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'cBase',
+            language: 'text/fhirpath',
+            expression: '18.8144'
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'cFemale',
+            language: 'text/fhirpath',
+            expression: '%female * -1.2146'
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'cAge',
+            language: 'text/fhirpath',
+            expression: '%cvdAge.ln() * -1.8443'
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'cAgeFemale',
+            language: 'text/fhirpath',
+            expression: '%female * %cvdAge.ln() * 0.3668'
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'cSBP',
+            language: 'text/fhirpath',
+            expression: '%systolicBP.ln() * -1.4032'
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'cSmoker',
+            language: 'text/fhirpath',
+            expression: '%smoker * -0.3899'
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'cTcHdl',
+            language: 'text/fhirpath',
+            expression: '(%totalCh / %hdl).ln() * -0.539'
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'cDiabetes',
+            language: 'text/fhirpath',
+            expression: '%diabetes * -0.3036'
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'cDiabetesFemale',
+            language: 'text/fhirpath',
+            expression: '%female * %diabetes * -0.1697'
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'cEcgLvh',
+            language: 'text/fhirpath',
+            expression: '%ecgLvh * -0.3362'
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'sumOfCoeffs',
+            language: 'text/fhirpath',
+            expression:
+              '%cBase + %cFemale + %cAge + %cAgeFemale + %cSBP + %cSmoker + %cTcHdl + %cDiabetes + %cDiabetesFemale + %cEcgLvh'
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'cvdScale',
+            language: 'text/fhirpath',
+            expression: '(0.6536 + (%sumOfCoeffs * -0.2402)).exp()'
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'cvdU',
+            language: 'text/fhirpath',
+            expression: '(5.ln()-%sumOfCoeffs)/%cvdScale'
+          }
+        },
+        {
+          url: 'http://hl7.org/fhir/StructureDefinition/variable',
+          valueExpression: {
+            name: 'cvdScore',
+            language: 'text/fhirpath',
+            expression: '(1 - (%cvdU.exp()*-1).exp()) * 100'
+          }
+        }
+      ],
+      linkId: 'scenario-2',
+      text: "Request for X-Ray Right Foot as 'Procedure + Laterality'",
+      type: 'group',
+      item: [
+        {
+          extension: [
+            {
+              url: 'http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl',
+              valueCodeableConcept: {
+                coding: [
+                  {
+                    system: 'http://hl7.org/fhir/questionnaire-item-control',
+                    code: 'autocomplete'
+                  }
+                ]
+              }
+            }
+          ],
+          linkId: 'medical-history-condition',
+          text: 'Medical History Condition',
+          type: 'open-choice',
+          answerValueSet: '#MedicalHistory'
+        },
+        {
+          extension: [
+            {
+              url: 'http://hl7.org/fhir/StructureDefinition/questionnaire-itemControl',
+              valueCodeableConcept: {
+                coding: [
+                  {
+                    system: 'http://hl7.org/fhir/questionnaire-item-control',
+                    code: 'autocomplete'
+                  }
+                ]
+              }
+            }
+          ],
+          linkId: 'medical-history-condition',
+          text: 'Medical History Condition',
+          type: 'open-choice',
+          answerValueSet: '#MedicalHistory'
+        }
+      ]
+    }
+  ]
+};