From cfca23a2db99a0287929417aa599f5a130df285e Mon Sep 17 00:00:00 2001 From: Jason Kulatunga Date: Thu, 27 Jun 2024 12:11:20 -0700 Subject: [PATCH 1/2] using metriport fhir converter fixes: https://github.com/fastenhealth/fasten-onprem/issues/472 fixes: https://github.com/fastenhealth/fasten-onprem/issues/291 --- README.md | 1 - .../medical-sources-connected.component.ts | 61 +++++++++--------- .../medical-sources.component.html | 10 ++- .../medical-sources.component.ts | 22 +++++-- frontend/src/app/services/platform.service.ts | 5 +- frontend/src/assets/images/metriport-logo.png | Bin 0 -> 14183 bytes frontend/src/lib/utils/error_extract.ts | 26 ++++++++ 7 files changed, 84 insertions(+), 41 deletions(-) create mode 100644 frontend/src/assets/images/metriport-logo.png create mode 100644 frontend/src/lib/utils/error_extract.ts diff --git a/README.md b/README.md index d30a8a90e..ff226fcbb 100644 --- a/README.md +++ b/README.md @@ -171,5 +171,4 @@ I'd also like to thank the following Corporate Sponsors: - diff --git a/frontend/src/app/components/medical-sources-connected/medical-sources-connected.component.ts b/frontend/src/app/components/medical-sources-connected/medical-sources-connected.component.ts index ec7d24e5d..9df8aac4b 100644 --- a/frontend/src/app/components/medical-sources-connected/medical-sources-connected.component.ts +++ b/frontend/src/app/components/medical-sources-connected/medical-sources-connected.component.ts @@ -15,6 +15,7 @@ import {SourceState} from '../../models/fasten/source-state'; import {PatientAccessBrand} from '../../models/patient-access-brands'; import {environment} from '../../../environments/environment'; import {BackgroundJobSyncData} from '../../models/fasten/background-job'; +import {extractErrorFromResponse, replaceErrors} from '../../../lib/utils/error_extract'; @Component({ selector: 'app-medical-sources-connected', @@ -217,7 +218,7 @@ export class MedicalSourcesConnectedComponent implements OnInit { const toastNotification = new ToastNotification() toastNotification.type = ToastType.Error - toastNotification.message = `An error occurred while finalizing external data source and starting sync: '${this.extractErrorFromResponse(err)}'` + toastNotification.message = `An error occurred while finalizing external data source and starting sync: '${extractErrorFromResponse(err)}'` toastNotification.autohide = false toastNotification.link = { text: "View Details", @@ -233,7 +234,7 @@ export class MedicalSourcesConnectedComponent implements OnInit { const toastNotification = new ToastNotification() toastNotification.type = ToastType.Error - toastNotification.message = `An error occurred while initializing external data source connection: '${this.extractErrorFromResponse(err)}'` + toastNotification.message = `An error occurred while initializing external data source connection: '${extractErrorFromResponse(err)}'` toastNotification.autohide = false this.toastService.show(toastNotification) console.error(err) @@ -253,7 +254,7 @@ export class MedicalSourcesConnectedComponent implements OnInit { } errData.error_data = { summary: toastNotification.message, - error: JSON.stringify(err, this.replaceErrors), + error: JSON.stringify(err, replaceErrors), stack: err.stack } @@ -262,31 +263,31 @@ export class MedicalSourcesConnectedComponent implements OnInit { }) } - //https://stackoverflow.com/a/18391400/1157633 - extractErrorFromResponse(errResp: any): string { - let errMsg = "" - if(errResp.name == "HttpErrorResponse" && errResp.error && errResp.error?.error){ - errMsg = errResp.error.error - } else { - errMsg = JSON.stringify(errResp, this.replaceErrors) - } - return errMsg - } - - //stringify error objects - replaceErrors(key, value) { - if (value instanceof Error) { - var error = {}; - - Object.getOwnPropertyNames(value).forEach(function (propName) { - error[propName] = value[propName]; - }); - - return error; - } - - return value; - } + // //https://stackoverflow.com/a/18391400/1157633 + // extractErrorFromResponse(errResp: any): string { + // let errMsg = "" + // if(errResp.name == "HttpErrorResponse" && errResp.error && errResp.error?.error){ + // errMsg = errResp.error.error + // } else { + // errMsg = JSON.stringify(errResp, replaceErrors) + // } + // return errMsg + // } + + // //stringify error objects + // replaceErrors(key, value) { + // if (value instanceof Error) { + // var error = {}; + // + // Object.getOwnPropertyNames(value).forEach(function (propName) { + // error[propName] = value[propName]; + // }); + // + // return error; + // } + // + // return value; + // } /** * https://github.com/smart-on-fhir/client-js/blob/8f64b770dbcd0abd30646e239cd446dfa4d831f6/src/lib.ts#L311 @@ -382,7 +383,7 @@ export class MedicalSourcesConnectedComponent implements OnInit { const toastNotification = new ToastNotification() toastNotification.type = ToastType.Error - toastNotification.message = `An error occurred while updating source (${source.display}): ${this.extractErrorFromResponse(err)}` + toastNotification.message = `An error occurred while updating source (${source.display}): ${extractErrorFromResponse(err)}` this.toastService.show(toastNotification) console.log(err) @@ -425,7 +426,7 @@ export class MedicalSourcesConnectedComponent implements OnInit { const toastNotification = new ToastNotification() toastNotification.type = ToastType.Error - toastNotification.message = `An error occurred while deleting source (${sourceDisplayName}): ${this.extractErrorFromResponse(err)}` + toastNotification.message = `An error occurred while deleting source (${sourceDisplayName}): ${extractErrorFromResponse(err)}` this.toastService.show(toastNotification) console.log(err) }) diff --git a/frontend/src/app/pages/medical-sources/medical-sources.component.html b/frontend/src/app/pages/medical-sources/medical-sources.component.html index 748be90bd..c0e22b294 100644 --- a/frontend/src/app/pages/medical-sources/medical-sources.component.html +++ b/frontend/src/app/pages/medical-sources/medical-sources.component.html @@ -39,6 +39,10 @@

Medical Record Sources

{{ f.name }} ({{ f.type }}) + + @@ -155,15 +159,15 @@
Convert your records?
Fasten does not natively support CCDA Health Records
-

However we can convert it automatically using software generously donated by the team at Health Samurai

+

However we can convert it automatically using open-source software generously provided the team at Metriport

This converter is hosted by Fasten Health, Inc. and is subject to our Privacy Policy. Your data will NEVER be shared with any third parties.

- - + +
diff --git a/frontend/src/app/pages/medical-sources/medical-sources.component.ts b/frontend/src/app/pages/medical-sources/medical-sources.component.ts index 657438f56..743033c39 100644 --- a/frontend/src/app/pages/medical-sources/medical-sources.component.ts +++ b/frontend/src/app/pages/medical-sources/medical-sources.component.ts @@ -19,6 +19,7 @@ import * as _ from 'lodash'; import {PatientAccessBrand} from '../../models/patient-access-brands'; import {PlatformService} from '../../services/platform.service'; import {FormRequestHealthSystemComponent} from '../../components/form-request-health-system/form-request-health-system.component'; +import {extractErrorFromResponse} from '../../../lib/utils/error_extract'; export const sourceConnectWindowTimeout = 24*5000 //wait 2 minutes (5 * 24 = 120) @@ -39,7 +40,7 @@ export class MedicalSourcesComponent implements OnInit { environment_name = environment.environment_name uploadedFile: File[] = [] - + uploadErrorMsg: string = "" availableLighthouseBrandList: SourceListItem[] = [] searchTermUpdate = new BehaviorSubject(""); @@ -313,7 +314,7 @@ export class MedicalSourcesComponent implements OnInit { * @param event */ public async uploadSourceBundleHandler(event) { - + this.uploadErrorMsg = "" let processingFile = event.addedFiles[0] as File this.uploadedFile = [processingFile] @@ -321,8 +322,16 @@ export class MedicalSourcesComponent implements OnInit { let shouldConvert = await this.showCcdaWarningModal() if(shouldConvert){ - let convertedFile = await this.platformApi.convertCcdaToFhir(processingFile).toPromise() - processingFile = convertedFile + try { + let convertedFile = await this.platformApi.convertCcdaToFhir(processingFile).toPromise() + processingFile = convertedFile + } catch(err){ + console.error(err) + this.uploadErrorMsg = "Error converting file: " + (extractErrorFromResponse(err) || "Unknown Error") + this.uploadedFile = [] + return + } + } else { this.uploadedFile = [] return @@ -334,7 +343,10 @@ export class MedicalSourcesComponent implements OnInit { this.fastenApi.createManualSource(processingFile).subscribe( (respData) => { }, - (err) => {console.log(err)}, + (err) => { + console.log(err) + this.uploadErrorMsg = "Error uploading file: " + (extractErrorFromResponse(err)|| "Unknown Error") + }, () => { this.uploadedFile = [] } diff --git a/frontend/src/app/services/platform.service.ts b/frontend/src/app/services/platform.service.ts index e8de65019..2ad8a987d 100644 --- a/frontend/src/app/services/platform.service.ts +++ b/frontend/src/app/services/platform.service.ts @@ -9,6 +9,7 @@ import {LighthouseSourceSearch} from '../models/lighthouse/lighthouse-source-sea import {environment} from '../../environments/environment'; import {ResponseWrapper} from '../models/response-wrapper'; import {map} from 'rxjs/operators'; +import {uuidV4} from '../../lib/utils/uuid'; @Injectable({ providedIn: 'root' @@ -22,8 +23,8 @@ export class PlatformService { throw new Error("Invalid CCDA file") } - const endpointUrl = new URL(`https://api.platform.fastenhealth.com/v1/app/ccda-to-fhir`); - return this._httpClient.post(endpointUrl.toString(), ccdaFile, { headers: {'Content-Type': 'application/cda+xml'} }) + const endpointUrl = new URL(`https://api.platform.fastenhealth.com/v1/app/convert/ccda/to/fhir?patientId=${uuidV4()}`); + return this._httpClient.post(endpointUrl.toString(), ccdaFile, { headers: {'Content-Type': 'application/xml', 'Accept':'application/json'} }) .pipe( map((responseJson: string) => { return new File([JSON.stringify(responseJson)], ccdaFile.name + ".converted.json", {type: "application/json", lastModified: ccdaFile.lastModified || Date.now()}) diff --git a/frontend/src/assets/images/metriport-logo.png b/frontend/src/assets/images/metriport-logo.png new file mode 100644 index 0000000000000000000000000000000000000000..8637b9a765715b6b0ebacfc38fe885423e7f99a8 GIT binary patch literal 14183 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Forked to implement a fix. --- backend/pkg/web/handler/source_test.go | 46 + ..._to_fhir_converted_C-CDA_R2-1_CCD.xml.json | 3794 +++++++++++++++++ 2 files changed, 3840 insertions(+) create mode 100644 backend/pkg/web/handler/testdata/ccda_to_fhir_converted_C-CDA_R2-1_CCD.xml.json diff --git a/backend/pkg/web/handler/source_test.go b/backend/pkg/web/handler/source_test.go index 80ab555b8..1f10426f0 100644 --- a/backend/pkg/web/handler/source_test.go +++ b/backend/pkg/web/handler/source_test.go @@ -152,3 +152,49 @@ func (suite *SourceHandlerTestSuite) TestCreateManualSourceHandler() { }, summary.ResourceTypeCounts[3]) } + +// bug: https://github.com/fastenhealth/fasten-onprem/pull/486 +func (suite *SourceHandlerTestSuite) TestCreateManualSourceHandler_ShouldExtractPatientIdFromConvertedCCDA() { + //setup + w := httptest.NewRecorder() + ctx, _ := gin.CreateTestContext(w) + ctx.Set(pkg.ContextKeyTypeLogger, logrus.WithField("test", suite.T().Name())) + ctx.Set(pkg.ContextKeyTypeDatabase, suite.AppRepository) + ctx.Set(pkg.ContextKeyTypeConfig, suite.AppConfig) + ctx.Set(pkg.ContextKeyTypeEventBusServer, suite.AppEventBus) + ctx.Set(pkg.ContextKeyTypeAuthUsername, "test_username") + + //test + req, err := CreateManualSourceHttpRequestFromFile("testdata/ccda_to_fhir_converted_C-CDA_R2-1_CCD.xml.json") + require.NoError(suite.T(), err) + ctx.Request = req + + CreateManualSource(ctx) + + //assert + require.Equal(suite.T(), http.StatusOK, w.Code) + + type ResponseWrapper struct { + Data struct { + UpdatedResources []string `json:"UpdatedResources"` + TotalResources int `json:"TotalResources"` + } `json:"data"` + Success bool `json:"success"` + Source models.SourceCredential `json:"source"` + } + var respWrapper ResponseWrapper + err = json.Unmarshal(w.Body.Bytes(), &respWrapper) + require.NoError(suite.T(), err) + + require.Equal(suite.T(), true, respWrapper.Success) + require.Equal(suite.T(), "manual", string(respWrapper.Source.PlatformType)) + require.Equal(suite.T(), 65, respWrapper.Data.TotalResources) + summary, err := suite.AppRepository.GetSourceSummary(ctx, respWrapper.Source.ID.String()) + require.NoError(suite.T(), err) + require.Equal(suite.T(), map[string]interface{}{ + "count": int64(1), + "resource_type": "Consent", + "source_id": respWrapper.Source.ID.String(), + }, summary.ResourceTypeCounts[3]) + +} diff --git a/backend/pkg/web/handler/testdata/ccda_to_fhir_converted_C-CDA_R2-1_CCD.xml.json b/backend/pkg/web/handler/testdata/ccda_to_fhir_converted_C-CDA_R2-1_CCD.xml.json new file mode 100644 index 000000000..ca2b6fae9 --- /dev/null +++ b/backend/pkg/web/handler/testdata/ccda_to_fhir_converted_C-CDA_R2-1_CCD.xml.json @@ -0,0 +1,3794 @@ +{ + "resourceType": "Bundle", + "type": "batch", + "entry": [ + { + "fullUrl": "urn:uuid:4e44abbd-c5af-365e-aefe-26190f0d5a87", + "resource": { + "resourceType": "Composition", + "id": "4e44abbd-c5af-365e-aefe-26190f0d5a87", + "identifier": { + "use": "official", + "value": "2.16.840.1.113883.19.5.99999.1" + }, + "status": "final", + "type": { + "coding": [ + { + "code": "34133-9", + "display": "Summarization of Episode Note", + "system": "http://loinc.org" + } + ] + }, + "date": "2013-08-15T18:30:00.000Z", + "title": "Patient Chart Summary", + "confidentiality": "N", + "attester": [ + { + "mode": "legal", + "time": "2013-08-16T06:36:15.000Z", + "party": { + "reference": "Practitioner/4939e179-a309-30ef-9889-e04751868181" + } + } + ], + "event": [ + { + "period": { + "start": "1975-05-01", + "end": "2013-08-15" + } + } + ], + "section": [ + { + "title": "ADVANCE DIRECTIVES", + "text": { + "status": "generated", + "div": "
ADVANCE DIRECTIVES
" + }, + "code": { + "coding": [ + { + "code": "42348-3", + "system": "http://loinc.org" + } + ] + }, + "mode": "snapshot", + "entry": [ + { + "reference": "Consent/cacd4221-4767-3c8a-ac02-c5399eeebf0d" + } + ] + }, + { + "title": "ALLERGIES AND ADVERSE REACTIONS", + "text": { + "status": "generated", + "div": "
ALLERGIES AND ADVERSE REACTIONS
" + }, + "code": { + "coding": [ + { + "code": "48765-2", + "system": "http://loinc.org" + } + ] + }, + "mode": "snapshot", + "entry": [ + { + "reference": "AllergyIntolerance/d7eee09d-b7a9-3fee-be2e-b2deefb5331a", + "display": "Penicillin" + }, + { + "reference": "AllergyIntolerance/5c562927-7a63-30f8-9dd2-5f25972a3a14", + "display": "Codeine" + } + ] + }, + { + "title": "ENCOUNTERS", + "text": { + "status": "generated", + "div": "
ENCOUNTERS
" + }, + "code": { + "coding": [ + { + "code": "46240-8", + "display": "History of encounters", + "system": "http://loinc.org" + } + ] + }, + "mode": "snapshot", + "entry": [ + { + "reference": "Encounter/2b11db3b-0ae1-32aa-bf51-d9ab5f8454a0" + } + ] + }, + { + "title": "FAMILY HISTORY", + "text": { + "status": "generated", + "div": "
FAMILY HISTORY
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