add measure-set column

README.md

@@ -144,6 +144,12 @@ Both the `ig-summary create` and `ig-summary diff` commands support settings fil
     # If the primary audience for the IG summary are clinical SMEs, including all the fixed codes
     # may be unnecessarily noisy.
     suppressedFixedCodes: false
+
+    # List of specific elements to be excluded while generating summary
+    excludeElement: [
+      'DeviceRequest.modifierExtension',
+      'DeviceRequest.modifierExtension:doNotPerform',
+      'Task.output.value[x]']
     ```
 
 -   Annotated settings file example for the `ig-summary diff` command:

data_dictionary_settings.example.yaml

@@ -1,3 +1,15 @@
 codeSystems:
   'http://snomed.info/sct': SNOMED CT
   'http://hl7.org/fhir/sid/icd-10-cm': ICD-10 CM
+
+excludeElement: [
+  'DeviceRequest.modifierExtension',
+  'DeviceRequest.modifierExtension:doNotPerform',
+  'Task.output.value[x]',
+  'Encounter.reasonReference',
+  'Claim.extension:encounter']
+
+extensionColumn: [
+  'used-by-measure', 
+  'associated-with-valueset'
+  ]

src/DataDictionarySettings.ts

@@ -13,7 +13,9 @@ export type DataDictionarySettings = {
     codeSystems?: { [key: string]: string };
     informationTabContent?: { [key: string]: string };
     touchUpHumanizedElementNames?: { [key: string]: string };
-    suppressFixedCodes?: boolean
+    suppressFixedCodes?: boolean;
+    extensionColumn?: string[];
+    excludeElement?: string[]
 };
 
 export function loadSettingsFromYaml(settingsPath: string): DataDictionarySettings {

src/data-dictionary/IgSummary.ts

@@ -9,7 +9,8 @@ import {logger} from '../util/logger';
 import {ProfileGroupExtractor, ProfileGroups} from '../profile_groups';
 import {
     DataElementInformation,
-    DataElementInformationForSpreadsheet
+    DataElementInformationForSpreadsheet,
+    SpreadsheetColNames
 } from '../elements/ProfileElement';
 import {ProfileElementFactory} from '../elements/Factory';
 import {
@@ -92,7 +93,6 @@ export class IgSummary {
         }
         this.outputDir = outputDir;
 
-
         if (logLevel === 'debug' || logLevel === 'warn' || logLevel === 'error') {
             logger.level = logLevel; // ig-data-dictionary logger
             fshutils.logger.level = logLevel; // SUSHI logger
@@ -252,20 +252,36 @@ export class IgSummary {
     public async generateSpreadsheet() {
         // Get external dependencies
         await this.getExternalDefs();
-
+        
         // Store data for CSV here
         let profileElements: Array<DataElementInformationForSpreadsheet> = [];
-
+        
         // Iterate through StructureDefinitions
         // Note that SUSHI creates duplicate objects for each Profile because it wants to index by URL, ID, and name.
         // `_.uniqBy()` cleans this up.
         if (this.defs.allProfiles().length == 0) {
             logger.error(`No profiles found in ${this.fhirDefFolder}.`);
             return;
         }
+
+        let extensionFlgMap = new Map<string, string>();
+
         for (const sd of _.uniqBy(this.defs.allProfiles(), 'id')) {
             const snapshot = sd.snapshot;
+
+            for (const elemJson of snapshot.element.slice(1)) {
+                elemJson.extension?.forEach((ext: any) => {
+                    this.settings.extensionColumn?.forEach((col:string) => {
+                        console.log(sd.title+elemJson.id+col);
+                        if (ext.url.includes('/StructureDefinition/' + col)) extensionFlgMap.set(sd.title+elemJson.id+col, 'true');
+                    })
+                })
+            }
+        }
 
+        for (const sd of _.uniqBy(this.defs.allProfiles(), 'id')) {
+            const snapshot = sd.snapshot;
+
             // Skip abstract profiles
             if (sd.abstract === true) {
                 continue;
@@ -278,6 +294,11 @@ export class IgSummary {
             // The `slice(1)` skips the first item in the array, which is information about the StructureDefinition
             // that isn't needed.
             for (const elemJson of snapshot.element.slice(1)) {
+                if (this.settings.excludeElement?.includes(elemJson.id)) {
+                    logger.warn(`${elemJson.id} wasn't included in the output summary report`);
+                    continue;
+                }
+
                 if (
                     this.settings.mode == DataDictionaryMode.MustSupport &&
                     !(
@@ -303,7 +324,7 @@ export class IgSummary {
                     [this.defs, this.externalDefs],
                     this.settings
                 );
-
+                
                 const elemToJson = elem.toJSON();
                 // Filter down to unique elements -- there may be duplicates because extension ProfileElement objects
                 // automatically add sub-elements.
@@ -324,6 +345,7 @@ export class IgSummary {
 
                 if (deduplicatedElemToJson) profileElements = profileElements.concat(deduplicatedElemToJson);
             }
+
         }
 
         // Get list of profiles, extensions, and value sets
@@ -413,8 +435,10 @@ export class IgSummary {
             bold: true,
             size: 16
         };
+
         [
-            ['', 'IG name', this.sushiConfig.title],
+            ['', 'IG name', this.sushiConfig.name],
+            ['', 'IG title', this.sushiConfig.title],
             ['', 'IG URL', this.sushiConfig.url],
             ['', 'IG version', this.sushiConfig.version],
             ['', 'IG status', this.sushiConfig.status],
@@ -425,6 +449,8 @@ export class IgSummary {
             ['', '# Value Sets', allValueSets.length],
             ['', '# Code Systems', allCodeSystems.length],
             [''],
+            ['', 'Extension type used for Extension? column', this.settings.extensionColumn],
+            [''],
             ['', 'Data dictionary generated date', new Date().toLocaleString('en-US')]
         ].forEach(line => {
             indexWorksheet.addRow(line);
@@ -510,7 +536,22 @@ export class IgSummary {
 
         ////////////////////////////////////////////////////////////////////////////////////////////////////////////////////
 
+        // Add extension columns dynamically
         const profileElementsWorksheet = workbook.addWorksheet('Data elements');
+        let col = Object.keys(profileElements[0]).map(k => {
+            return { name: k, key: k, filterButton: true };
+        });
+
+        this.settings.extensionColumn?.forEach ((ec: string) => {
+            col.push({ name: ec, key: ec, filterButton: true });
+        })
+
+        profileElements.forEach(pe => {
+            this.settings.extensionColumn?.forEach ((ec: string) => {
+                pe[ec] = extensionFlgMap.get(pe[SpreadsheetColNames.ProfileTitle]+pe[SpreadsheetColNames.FHIRElement]+ec);
+            })
+        });
+
         // Add table
         profileElementsWorksheet.addTable({
             name: 'profile_data_elements',
@@ -521,9 +562,7 @@ export class IgSummary {
                 theme: 'TableStyleMedium2',
                 showRowStripes: true
             },
-            columns: Object.keys(profileElements[0]).map(k => {
-                return {name: k, key: k, filterButton: true};
-            }),
+            columns: col,
             rows: profileElements.map(k => {
                 return Object.values(k);
             })
@@ -712,5 +751,4 @@ export class IgSummary {
             differ.logSummary();
         }
     }
-
 }

src/elements/ProfileElement.ts

@@ -30,7 +30,7 @@ export enum SpreadsheetColNames {
     ValueSetBinding = 'Value Set Binding',
     FHIRElement = 'FHIR Element (R4)',
     SourceProfileURI = 'Source Profile URI',
-    ElementStructureDefinitionURI = 'Element StructureDefinition URI',
+    ElementStructureDefinitionURI = 'Element StructureDefinition URI'
 }
 
 // Non-optional version of DataElementInformation, with proper row names