From 18921fb0a7f72e2464d0c10eb477281e8e70538b Mon Sep 17 00:00:00 2001 From: apgupta3303 Date: Thu, 1 Feb 2024 17:11:39 -0800 Subject: [PATCH] Setting up fhirstore and mock patients --- Intake/IntakeStandard.swift | 41 +- Intake/Mock Data/FHIRStore+Extensions.swift | 171 + Intake/Mock Data/MockData.swift | 118 + Intake/Resources/Localizable.xcstrings | 53 +- ..._ad134528-56a5-35fd-c37f-466ff119c625.json | 92122 ++ ...8-56a5-35fd-c37f-466ff119c625.json.license | 8 + ..._5b3645de-a2d0-d016-0839-bab3757c4c58.json | 37293 + ...e-a2d0-d016-0839-bab3757c4c58.json.license | 8 + ..._9c3df38a-d3b7-2198-3898-51f9153d023d.json | 35982 + ...a-d3b7-2198-3898-51f9153d023d.json.license | 8 + ..._ed70a28f-30b2-acb7-658a-8b340dadd685.json | 880347 +++++++++++++++ ...f-30b2-acb7-658a-8b340dadd685.json.license | 8 + ..._e0e1f21a-22a7-d166-7bb1-63f6bbce1a32.json | 196170 ++++ ...a-22a7-d166-7bb1-63f6bbce1a32.json.license | 8 + ..._d66b5418-06cb-fc8a-8c13-85685b6ac939.json | 73140 ++ ...8-06cb-fc8a-8c13-85685b6ac939.json.license | 8 + Intake/Settings/ResourceSelection.swift | 85 + Intake/Settings/SettingsView.swift | 113 + 18 files changed, 1315659 insertions(+), 24 deletions(-) create mode 100644 Intake/Mock Data/FHIRStore+Extensions.swift create mode 100644 Intake/Mock Data/MockData.swift create mode 100644 Intake/Resources/Mock Patients/Allen322_Ferry570_ad134528-56a5-35fd-c37f-466ff119c625.json create mode 100644 Intake/Resources/Mock Patients/Allen322_Ferry570_ad134528-56a5-35fd-c37f-466ff119c625.json.license create mode 100644 Intake/Resources/Mock Patients/Beatris270_Bogan287_5b3645de-a2d0-d016-0839-bab3757c4c58.json create mode 100644 Intake/Resources/Mock Patients/Beatris270_Bogan287_5b3645de-a2d0-d016-0839-bab3757c4c58.json.license create mode 100644 Intake/Resources/Mock Patients/Edythe31_Morar593_9c3df38a-d3b7-2198-3898-51f9153d023d.json create mode 100644 Intake/Resources/Mock Patients/Edythe31_Morar593_9c3df38a-d3b7-2198-3898-51f9153d023d.json.license create mode 100644 Intake/Resources/Mock Patients/Gonzalo160_Duenas839_ed70a28f-30b2-acb7-658a-8b340dadd685.json create mode 100644 Intake/Resources/Mock Patients/Gonzalo160_Duenas839_ed70a28f-30b2-acb7-658a-8b340dadd685.json.license create mode 100644 Intake/Resources/Mock Patients/Jacklyn830_Veum823_e0e1f21a-22a7-d166-7bb1-63f6bbce1a32.json create mode 100644 Intake/Resources/Mock Patients/Jacklyn830_Veum823_e0e1f21a-22a7-d166-7bb1-63f6bbce1a32.json.license create mode 100644 Intake/Resources/Mock Patients/Milton509_Ortiz186_d66b5418-06cb-fc8a-8c13-85685b6ac939.json create mode 100644 Intake/Resources/Mock Patients/Milton509_Ortiz186_d66b5418-06cb-fc8a-8c13-85685b6ac939.json.license create mode 100644 Intake/Settings/ResourceSelection.swift create mode 100644 Intake/Settings/SettingsView.swift diff --git a/Intake/IntakeStandard.swift b/Intake/IntakeStandard.swift index de9d2e7..334e7d3 100644 --- a/Intake/IntakeStandard.swift +++ b/Intake/IntakeStandard.swift @@ -15,6 +15,8 @@ import Spezi import SpeziAccount import SpeziFirebaseAccountStorage import SpeziFirestore +import SpeziFHIR +import SpeziFHIRHealthKit import SpeziHealthKit import SpeziMockWebService import SpeziOnboarding @@ -23,6 +25,11 @@ import SwiftUI actor IntakeStandard: Standard, EnvironmentAccessible, HealthKitConstraint, OnboardingConstraint, AccountStorageConstraint { + @Dependency var fhirStore: FHIRStore + + @MainActor var useHealthKitResources = true + private var samples: [HKSample] = [] + enum IntakeStandardError: Error { case userNotAuthenticatedYet } @@ -68,32 +75,28 @@ actor IntakeStandard: Standard, EnvironmentAccessible, HealthKitConstraint, Onbo func add(sample: HKSample) async { - if let mockWebService { - let encoder = JSONEncoder() - encoder.outputFormatting = [.prettyPrinted, .sortedKeys, .withoutEscapingSlashes] - let jsonRepresentation = (try? String(data: encoder.encode(sample.resource), encoding: .utf8)) ?? "" - try? await mockWebService.upload(path: "healthkit/\(sample.uuid.uuidString)", body: jsonRepresentation) - return - } - - do { - try await healthKitDocument(id: sample.id).setData(from: sample.resource) - } catch { - logger.error("Could not store HealthKit sample: \(error)") + samples.append(sample) + if await useHealthKitResources { + await fhirStore.add(sample: sample) } } func remove(sample: HKDeletedObject) async { - if let mockWebService { - try? await mockWebService.remove(path: "healthkit/\(sample.uuid.uuidString)") - return + samples.removeAll(where: { $0.id == sample.uuid }) + if await useHealthKitResources { + await fhirStore.remove(sample: sample) } + } + + @MainActor + func loadHealthKitResources() async { + await fhirStore.removeAllResources() - do { - try await healthKitDocument(id: sample.uuid).delete() - } catch { - logger.error("Could not remove HealthKit sample: \(error)") + for sample in await samples { + await fhirStore.add(sample: sample) } + + useHealthKitResources = true } func add(response: ModelsR4.QuestionnaireResponse) async { diff --git a/Intake/Mock Data/FHIRStore+Extensions.swift b/Intake/Mock Data/FHIRStore+Extensions.swift new file mode 100644 index 0000000..dcaa77a --- /dev/null +++ b/Intake/Mock Data/FHIRStore+Extensions.swift @@ -0,0 +1,171 @@ +// +// This source file is part of the Stanford LLM on FHIR project +// +// SPDX-FileCopyrightText: 2023 Stanford University +// +// SPDX-License-Identifier: MIT +// + +import ModelsR4 +import SpeziFHIR +import SwiftUI + + +extension FHIRStore { + var llmRelevantResources: [FHIRResource] { + allergyIntolerances + + llmConditions + + encounters.uniqueDisplayNames + + immunizations + + llmMedications + + observations.uniqueDisplayNames + + procedures.uniqueDisplayNames + } + + var allResources: [FHIRResource] { + allergyIntolerances + + conditions + + diagnostics + + encounters + + immunizations + + medications + + observations + + otherResources + + procedures + } + + var patient: FHIRResource? { + otherResources + .first { resource in + guard case let .r4(resource) = resource.versionedResource, + resource is ModelsR4.Patient else { + return false + } + + return true + } + } + + private var llmConditions: [FHIRResource] { + conditions + .filter { resource in + guard case let .r4(resource) = resource.versionedResource, + let condition = resource as? ModelsR4.Condition else { + return false + } + + return condition.clinicalStatus?.coding?.contains { coding in + guard coding.system?.value?.url == URL(string: "http://terminology.hl7.org/CodeSystem/condition-clinical"), + coding.code?.value?.string == "active" else { + return false + } + + return true + } ?? false + } + } + + private var llmMedications: [FHIRResource] { + func medicationRequest(resource: FHIRResource) -> MedicationRequest? { + guard case let .r4(resource) = resource.versionedResource, + let medicationRequest = resource as? ModelsR4.MedicationRequest else { + return nil + } + + return medicationRequest + } + + let outpatientMedications = medications + .filter { medication in + guard let medicationRequest = medicationRequest(resource: medication), + medicationRequest.category? + .contains(where: { codableconcept in + codableconcept.text?.value?.string.lowercased() == "outpatient" + }) + ?? false else { + return false + } + + return true + } + .uniqueDisplayNames + + let activeMedications = medications + .filter { medication in + guard let medicationRequest = medicationRequest(resource: medication), + medicationRequest.status == .active else { + return false + } + + return true + } + .uniqueDisplayNames + + return outpatientMedications + activeMedications + } + +// var allResourcesFunctionCallIdentifier: [String] { +// @AppStorage(StorageKeys.resourceLimit) var resourceLimit = StorageKeys.Defaults.resourceLimit +// +// let relevantResources: [FHIRResource] +// +// if llmRelevantResources.count > resourceLimit { +// relevantResources = llmRelevantResources +// .lazy +// .filter { +// $0.date != nil +// } +// .sorted { +// $0.date ?? .distantPast < $1.date ?? .distantPast +// } +// .suffix(resourceLimit) +// } else { +// relevantResources = llmRelevantResources +// } +// +// return Array(Set(relevantResources.map { $0.functionCallIdentifier })) +// } +// +// +// func loadMockResources() { +// if FeatureFlags.testMode { +// let mockObservation = Observation( +// code: CodeableConcept(coding: [Coding(code: "1234".asFHIRStringPrimitive())]), +// id: FHIRPrimitive("1234"), +// issued: FHIRPrimitive(try? Instant(date: .now)), +// status: FHIRPrimitive(ObservationStatus.final) +// ) +// +// let mockFHIRResource = FHIRResource( +// versionedResource: .r4(mockObservation), +// displayName: "Mock Resource" +// ) +// +// removeAllResources() +// insert(resource: mockFHIRResource) +// } +// } +} + + +extension Array where Element == FHIRResource { + fileprivate var uniqueDisplayNames: [FHIRResource] { + let reducedEncounters = Dictionary( + map { ($0.displayName, $0) }, + uniquingKeysWith: { first, second in + if first.date ?? .distantFuture < second.date ?? .distantPast { + return second + } else { + return first + } + } + ) + + return Array(reducedEncounters.values) + } + + + fileprivate func dateSuffix(maxLength: Int) -> [FHIRResource] { + self.lazy.sorted(by: { $0.date ?? .distantPast < $1.date ?? .distantPast }).suffix(maxLength) + } +} diff --git a/Intake/Mock Data/MockData.swift b/Intake/Mock Data/MockData.swift new file mode 100644 index 0000000..5f45c8d --- /dev/null +++ b/Intake/Mock Data/MockData.swift @@ -0,0 +1,118 @@ +// +// This source file is part of the Stanford LLM on FHIR project +// +// SPDX-FileCopyrightText: 2023 Stanford University +// +// SPDX-License-Identifier: MIT +// + +import Foundation +import class ModelsR4.Bundle +import SpeziFHIRMockPatients + + +extension ModelsR4.Bundle { + private static var _allen322Ferry570: ModelsR4.Bundle? + static var allen322Ferry570: ModelsR4.Bundle { + get async { + if let allen322Ferry570 = _allen322Ferry570 { + return allen322Ferry570 + } + + let allen322Ferry570 = await Foundation.Bundle.main.loadFHIRBundle( + withName: "Allen322_Ferry570_ad134528-56a5-35fd-c37f-466ff119c625" + ) + ModelsR4.Bundle._allen322Ferry570 = allen322Ferry570 + return allen322Ferry570 + } + } + + private static var _beatris270Bogan287: ModelsR4.Bundle? + static var beatris270Bogan287: ModelsR4.Bundle { + get async { + if let beatris270Bogan287 = _beatris270Bogan287 { + return beatris270Bogan287 + } + + let beatris270Bogan287 = await Foundation.Bundle.main.loadFHIRBundle( + withName: "Beatris270_Bogan287_5b3645de-a2d0-d016-0839-bab3757c4c58" + ) + ModelsR4.Bundle._beatris270Bogan287 = beatris270Bogan287 + return beatris270Bogan287 + } + } + + private static var _edythe31Morar593: ModelsR4.Bundle? + static var edythe31Morar593: ModelsR4.Bundle { + get async { + if let edythe31Morar593 = _edythe31Morar593 { + return edythe31Morar593 + } + + let edythe31Morar593 = await Foundation.Bundle.main.loadFHIRBundle( + withName: "Edythe31_Morar593_9c3df38a-d3b7-2198-3898-51f9153d023d" + ) + ModelsR4.Bundle._edythe31Morar593 = edythe31Morar593 + return edythe31Morar593 + } + } + + private static var _gonzalo160Duenas839: ModelsR4.Bundle? + static var gonzalo160Duenas839: ModelsR4.Bundle { + get async { + if let gonzalo160Duenas839 = _gonzalo160Duenas839 { + return gonzalo160Duenas839 + } + + let gonzalo160Duenas839 = await Foundation.Bundle.main.loadFHIRBundle( + withName: "Gonzalo160_Duenas839_ed70a28f-30b2-acb7-658a-8b340dadd685" + ) + ModelsR4.Bundle._gonzalo160Duenas839 = gonzalo160Duenas839 + return gonzalo160Duenas839 + } + } + + private static var _jacklyn830Veum823: ModelsR4.Bundle? + static var jacklyn830Veum823: ModelsR4.Bundle { + get async { + if let jacklyn830Veum823 = _jacklyn830Veum823 { + return jacklyn830Veum823 + } + + let jacklyn830Veum823 = await Foundation.Bundle.main.loadFHIRBundle( + withName: "Jacklyn830_Veum823_e0e1f21a-22a7-d166-7bb1-63f6bbce1a32" + ) + ModelsR4.Bundle._jacklyn830Veum823 = jacklyn830Veum823 + return jacklyn830Veum823 + } + } + + private static var _milton509Ortiz186: ModelsR4.Bundle? + static var milton509Ortiz186: ModelsR4.Bundle { + get async { + if let milton509Ortiz186 = _milton509Ortiz186 { + return milton509Ortiz186 + } + + let milton509Ortiz186 = await Foundation.Bundle.main.loadFHIRBundle( + withName: "Milton509_Ortiz186_d66b5418-06cb-fc8a-8c13-85685b6ac939" + ) + ModelsR4.Bundle._milton509Ortiz186 = milton509Ortiz186 + return milton509Ortiz186 + } + } + + + static var llmOnFHIRMockPatients: [Bundle] { + get async { + await [ + .allen322Ferry570, + .beatris270Bogan287, + .edythe31Morar593, + .gonzalo160Duenas839, + .jacklyn830Veum823, + .milton509Ortiz186 + ] + } + } +} diff --git a/Intake/Resources/Localizable.xcstrings b/Intake/Resources/Localizable.xcstrings index 885f589..1cbc92f 100644 --- a/Intake/Resources/Localizable.xcstrings +++ b/Intake/Resources/Localizable.xcstrings @@ -1,6 +1,12 @@ { "sourceLanguage" : "en", "strings" : { + "2. Please list current conditions you have" : { + + }, + "5. What are your current allergies?" : { + + }, "ACCOUNT_NEXT" : { "localizations" : { "en" : { @@ -51,6 +57,9 @@ } } } + }, + "Add Field" : { + }, "Allergies" : { @@ -78,6 +87,9 @@ } } } + }, + "Condition" : { + }, "CONSENT_LOADING_ERROR" : { "localizations" : { @@ -142,6 +154,9 @@ }, "Download your medical records from your health system." : { + }, + "FHIR_RESOURCES_CHAT_CANCEL" : { + }, "Get Started" : { @@ -227,6 +242,12 @@ }, "Medications" : { + }, + "MOCK_ALLERGY_RECORDS_TITLE" : { + + }, + "MOCK_MEDICAL_HISTORY_TITLE" : { + }, "MOCK_WEB_SERVICE_TAB_TITLE" : { "comment" : "MARK: - Mock Upload Data Storage Provider", @@ -240,6 +261,7 @@ } }, "NOTIFICATION_PERMISSIONS_BUTTON" : { + "extractionState" : "stale", "localizations" : { "en" : { "stringUnit" : { @@ -250,6 +272,7 @@ } }, "NOTIFICATION_PERMISSIONS_DESCRIPTION" : { + "extractionState" : "stale", "localizations" : { "en" : { "stringUnit" : { @@ -260,6 +283,7 @@ } }, "NOTIFICATION_PERMISSIONS_SUBTITLE" : { + "extractionState" : "stale", "localizations" : { "en" : { "stringUnit" : { @@ -271,6 +295,7 @@ }, "NOTIFICATION_PERMISSIONS_TITLE" : { "comment" : "MARK: Notifications", + "extractionState" : "stale", "localizations" : { "en" : { "stringUnit" : { @@ -279,19 +304,19 @@ } } } - }, - "Other important questions." : { - }, "OLIVER_AALAMI_BIO" : { - "localizations" : { - "en" : { + "localizations" : { + "en" : { "stringUnit" : { "state" : "translated", "value" : "Dr. Oliver O. Aalami is a Clinical Professor of Surgery at Stanford University and a vascular surgeon based in Palo Alto, California. He is affiliated with Stanford Health Care and the VA Palo Alto Health Care System.\nDr. Aalami is also the Director of Biodesign for Digital Health at the Stanford Byers Center for Biodesign. He co-founded Spezi (formerly CardinalKit) and is passionate about clinically validating smartphone and smartwatch sensors in patients with cardiovascular disease." } } } + }, + "Other important questions." : { + }, "PROJECT_LICENSE_DESCRIPTION" : { "localizations" : { @@ -322,6 +347,9 @@ } } } + }, + "Reactions" : { + }, "Repository Link" : { "localizations" : { @@ -332,6 +360,12 @@ } } } + }, + "Resource Selection" : { + + }, + "Resource Settings" : { + }, "Review of Systems" : { @@ -359,6 +393,12 @@ } } } + }, + "SETTINGS" : { + + }, + "SETTINGS_TITLE" : { + }, "Share with provider of your choice." : { @@ -432,6 +472,9 @@ }, "Together we will summarize..." : { + }, + "Use HealthKit Resources" : { + }, "Welcome to ReForm" : { diff --git a/Intake/Resources/Mock Patients/Allen322_Ferry570_ad134528-56a5-35fd-c37f-466ff119c625.json b/Intake/Resources/Mock Patients/Allen322_Ferry570_ad134528-56a5-35fd-c37f-466ff119c625.json new file mode 100644 index 0000000..e118f19 --- /dev/null +++ b/Intake/Resources/Mock Patients/Allen322_Ferry570_ad134528-56a5-35fd-c37f-466ff119c625.json @@ -0,0 +1,92122 @@ +{ + "resourceType": "Bundle", + "type": "transaction", + "entry": [ { + "fullUrl": "urn:uuid:ad134528-56a5-35fd-c37f-466ff119c625", + "resource": { + "resourceType": "Patient", + "id": "ad134528-56a5-35fd-c37f-466ff119c625", + "meta": { + "profile": [ "http://hl7.org/fhir/us/core/StructureDefinition/us-core-patient" ] + }, + "text": { + "status": "generated", + "div": "
Generated by Synthea.Version identifier: master-branch-latest-7-gcc27279b\n . Person seed: 8618715897759963534 Population seed: 0
" + }, + "extension": [ { + "url": "http://hl7.org/fhir/us/core/StructureDefinition/us-core-race", + "extension": [ { + "url": "ombCategory", + "valueCoding": { + "system": "urn:oid:2.16.840.1.113883.6.238", + "code": "2106-3", + "display": "White" + } + }, { + "url": "text", + "valueString": "White" + } ] + }, { + "url": "http://hl7.org/fhir/us/core/StructureDefinition/us-core-ethnicity", + "extension": [ { + "url": "ombCategory", + "valueCoding": { + "system": "urn:oid:2.16.840.1.113883.6.238", + "code": "2186-5", + "display": "Not Hispanic or Latino" + } + }, { + "url": "text", + "valueString": "Not Hispanic or Latino" + } ] + }, { + "url": "http://hl7.org/fhir/StructureDefinition/patient-mothersMaidenName", + "valueString": "Jinny850 Pouros728" + }, { + "url": "http://hl7.org/fhir/us/core/StructureDefinition/us-core-birthsex", + "valueCode": "M" + }, { + "url": "http://hl7.org/fhir/StructureDefinition/patient-birthPlace", + "valueAddress": { + "city": "Millis", + "state": "Massachusetts", + "country": "US" + } + }, { + "url": "http://synthetichealth.github.io/synthea/disability-adjusted-life-years", + "valueDecimal": 18.902413381088788 + }, { + "url": "http://synthetichealth.github.io/synthea/quality-adjusted-life-years", + "valueDecimal": 61.09758661891121 + } ], + "identifier": [ { + "system": "https://github.com/synthetichealth/synthea", + "value": "ad134528-56a5-35fd-c37f-466ff119c625" + }, { + "type": { + "coding": [ { + "system": "http://terminology.hl7.org/CodeSystem/v2-0203", + "code": "MR", + "display": "Medical Record Number" + } ], + "text": "Medical Record Number" + }, + "system": "http://hospital.smarthealthit.org", + "value": "ad134528-56a5-35fd-c37f-466ff119c625" + }, { + "type": { + "coding": [ { + "system": "http://terminology.hl7.org/CodeSystem/v2-0203", + "code": "SS", + "display": "Social Security Number" + } ], + "text": "Social Security Number" + }, + "system": "http://hl7.org/fhir/sid/us-ssn", + "value": "999-98-4342" + }, { + "type": { + "coding": [ { + "system": "http://terminology.hl7.org/CodeSystem/v2-0203", + "code": "DL", + "display": "Driver's License" + } ], + "text": "Driver's License" + }, + "system": "urn:oid:2.16.840.1.113883.4.3.25", + "value": "S99946280" + }, { + "type": { + "coding": [ { + "system": "http://terminology.hl7.org/CodeSystem/v2-0203", + "code": "PPN", + "display": "Passport Number" + } ], + "text": "Passport Number" + }, + "system": "http://standardhealthrecord.org/fhir/StructureDefinition/passportNumber", + "value": "X84186192X" + } ], + "name": [ { + "use": "official", + "family": "Ferry570", + "given": [ "Allen322" ], + "prefix": [ "Mr." ] + } ], + "telecom": [ { + "system": "phone", + "value": "555-503-8314", + "use": "home" + } ], + "gender": "male", + "birthDate": "1940-12-31", + "address": [ { + "extension": [ { + "url": "http://hl7.org/fhir/StructureDefinition/geolocation", + "extension": [ { + "url": "latitude", + "valueDecimal": 42.333816171984 + }, { + "url": "longitude", + "valueDecimal": -71.69423255913725 + } ] + } ], + "line": [ "217 Robel Promenade" ], + "city": "Northborough", + "state": "MA", + "country": "US" + } ], + "maritalStatus": { + "coding": [ { + "system": "http://terminology.hl7.org/CodeSystem/v3-MaritalStatus", + "code": "M", + "display": "M" + } ], + "text": "M" + }, + "multipleBirthBoolean": false, + "communication": [ { + "language": { + "coding": [ { + "system": "urn:ietf:bcp:47", + "code": "en-US", + "display": "English" + } ], + "text": "English" + } + } ] + }, + "request": { + "method": "POST", + "url": "Patient" + } + }, { + "fullUrl": "urn:uuid:f35699e7-a4e3-451b-33a3-08aa4f73376a", + "resource": { + "resourceType": "Encounter", + "id": "f35699e7-a4e3-451b-33a3-08aa4f73376a", + "meta": { + "profile": [ "http://hl7.org/fhir/us/core/StructureDefinition/us-core-encounter" ] + }, + "identifier": [ { + "use": "official", + "system": "https://github.com/synthetichealth/synthea", + "value": 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INC." + } + } ] + }, + "request": { + "method": "POST", + "url": "Provenance" + } + } ] +} diff --git a/Intake/Resources/Mock Patients/Gonzalo160_Duenas839_ed70a28f-30b2-acb7-658a-8b340dadd685.json.license b/Intake/Resources/Mock Patients/Gonzalo160_Duenas839_ed70a28f-30b2-acb7-658a-8b340dadd685.json.license new file mode 100644 index 0000000..750aeae --- /dev/null +++ b/Intake/Resources/Mock Patients/Gonzalo160_Duenas839_ed70a28f-30b2-acb7-658a-8b340dadd685.json.license @@ -0,0 +1,8 @@ + +This source file is part of the Stanford LLM on FHIR project + +SPDX-FileCopyrightText: 2023 Stanford University + +SPDX-License-Identifier: MIT + +The patient mock data is generated by Synthea: https://github.com/synthetichealth/synthea: Jason Walonoski, Mark Kramer, Joseph Nichols, Andre Quina, Chris Moesel, Dylan Hall, Carlton Duffett, Kudakwashe Dube, Thomas Gallagher, Scott McLachlan, Synthea: An approach, method, and software mechanism for generating synthetic patients and the synthetic electronic health care record, Journal of the American Medical Informatics Association, Volume 25, Issue 3, March 2018, Pages 230–238, https://doi.org/10.1093/jamia/ocx079 diff --git a/Intake/Resources/Mock Patients/Jacklyn830_Veum823_e0e1f21a-22a7-d166-7bb1-63f6bbce1a32.json b/Intake/Resources/Mock Patients/Jacklyn830_Veum823_e0e1f21a-22a7-d166-7bb1-63f6bbce1a32.json new file mode 100644 index 0000000..a634e42 --- /dev/null +++ b/Intake/Resources/Mock Patients/Jacklyn830_Veum823_e0e1f21a-22a7-d166-7bb1-63f6bbce1a32.json @@ -0,0 +1,196170 @@ +{ + "resourceType": "Bundle", + "type": "transaction", + "entry": [ { + "fullUrl": "urn:uuid:e0e1f21a-22a7-d166-7bb1-63f6bbce1a32", + "resource": { + "resourceType": "Patient", + "id": "e0e1f21a-22a7-d166-7bb1-63f6bbce1a32", + "meta": { + "profile": [ "http://hl7.org/fhir/us/core/StructureDefinition/us-core-patient" ] + }, + "text": { + "status": "generated", + "div": "
Generated by Synthea.Version identifier: 36ca5da\n . Person seed: -2193170253759421515 Population seed: 1699997975546
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Patients/Jacklyn830_Veum823_e0e1f21a-22a7-d166-7bb1-63f6bbce1a32.json.license new file mode 100644 index 0000000..750aeae --- /dev/null +++ b/Intake/Resources/Mock Patients/Jacklyn830_Veum823_e0e1f21a-22a7-d166-7bb1-63f6bbce1a32.json.license @@ -0,0 +1,8 @@ + +This source file is part of the Stanford LLM on FHIR project + +SPDX-FileCopyrightText: 2023 Stanford University + +SPDX-License-Identifier: MIT + +The patient mock data is generated by Synthea: https://github.com/synthetichealth/synthea: Jason Walonoski, Mark Kramer, Joseph Nichols, Andre Quina, Chris Moesel, Dylan Hall, Carlton Duffett, Kudakwashe Dube, Thomas Gallagher, Scott McLachlan, Synthea: An approach, method, and software mechanism for generating synthetic patients and the synthetic electronic health care record, Journal of the American Medical Informatics Association, Volume 25, Issue 3, March 2018, Pages 230–238, https://doi.org/10.1093/jamia/ocx079 diff --git a/Intake/Resources/Mock Patients/Milton509_Ortiz186_d66b5418-06cb-fc8a-8c13-85685b6ac939.json b/Intake/Resources/Mock Patients/Milton509_Ortiz186_d66b5418-06cb-fc8a-8c13-85685b6ac939.json new file mode 100644 index 0000000..506cbd9 --- /dev/null +++ b/Intake/Resources/Mock Patients/Milton509_Ortiz186_d66b5418-06cb-fc8a-8c13-85685b6ac939.json @@ -0,0 +1,73140 @@ +{ + "resourceType": "Bundle", + "type": "transaction", + "entry": [ { + "fullUrl": "urn:uuid:d66b5418-06cb-fc8a-8c13-85685b6ac939", + "resource": { + "resourceType": "Patient", + "id": "d66b5418-06cb-fc8a-8c13-85685b6ac939", + "meta": { + "profile": [ "http://hl7.org/fhir/us/core/StructureDefinition/us-core-patient" ] + }, + "text": { + "status": "generated", + "div": "
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"display": "PCP167180" + } + }, { + "type": { + "coding": [ { + "system": "http://hl7.org/fhir/us/core/CodeSystem/us-core-provenance-participant-type", + "code": "transmitter", + "display": "Transmitter" + } ], + "text": "Transmitter" + }, + "who": { + "reference": "Practitioner?identifier=http://hl7.org/fhir/sid/us-npi|9999945659", + "display": "Dr. Lionel365 Cormier289" + }, + "onBehalfOf": { + "reference": "Organization?identifier=https://github.com/synthetichealth/synthea|24bcfc89-997e-3a62-a6c3-83ed31af8901", + "display": "PCP167180" + } + } ] + }, + "request": { + "method": "POST", + "url": "Provenance" + } + } ] +} diff --git a/Intake/Resources/Mock Patients/Milton509_Ortiz186_d66b5418-06cb-fc8a-8c13-85685b6ac939.json.license b/Intake/Resources/Mock Patients/Milton509_Ortiz186_d66b5418-06cb-fc8a-8c13-85685b6ac939.json.license new file mode 100644 index 0000000..750aeae --- /dev/null +++ b/Intake/Resources/Mock Patients/Milton509_Ortiz186_d66b5418-06cb-fc8a-8c13-85685b6ac939.json.license @@ -0,0 +1,8 @@ + +This source file is part of the Stanford LLM on FHIR project + +SPDX-FileCopyrightText: 2023 Stanford University + +SPDX-License-Identifier: MIT + +The patient mock data is generated by Synthea: https://github.com/synthetichealth/synthea: Jason Walonoski, Mark Kramer, Joseph Nichols, Andre Quina, Chris Moesel, Dylan Hall, Carlton Duffett, Kudakwashe Dube, Thomas Gallagher, Scott McLachlan, Synthea: An approach, method, and software mechanism for generating synthetic patients and the synthetic electronic health care record, Journal of the American Medical Informatics Association, Volume 25, Issue 3, March 2018, Pages 230–238, https://doi.org/10.1093/jamia/ocx079 diff --git a/Intake/Settings/ResourceSelection.swift b/Intake/Settings/ResourceSelection.swift new file mode 100644 index 0000000..9a42ab8 --- /dev/null +++ b/Intake/Settings/ResourceSelection.swift @@ -0,0 +1,85 @@ +// +// This source file is part of the Stanford LLM on FHIR project +// +// SPDX-FileCopyrightText: 2023 Stanford University +// +// SPDX-License-Identifier: MIT +// + +import ModelsR4 +import SpeziFHIR +import SpeziFHIRMockPatients +import SwiftUI + + +struct ResourceSelection: View { + @Environment(IntakeStandard.self) private var standard + @Environment(FHIRStore.self) private var store + + @State private var bundles: [ModelsR4.Bundle] = [] + @State private var showBundleSelection = false + + @MainActor var useHealthKitResources: Binding { + Binding( + get: { + /* + if FeatureFlags.mockPatients { + showBundleSelection = true + return false + } + */ + return standard.useHealthKitResources + }, + set: { newValue in + showBundleSelection = !newValue + standard.useHealthKitResources = newValue + } + ) + } + + + var body: some View { + Form { + Section { + Toggle(isOn: useHealthKitResources) { + Text("Use HealthKit Resources") + } + .onChange(of: useHealthKitResources.wrappedValue, initial: true) { + if useHealthKitResources.wrappedValue { + _Concurrency.Task { + await standard.loadHealthKitResources() + } + } else { + guard let firstMockPatient = bundles.first else { + return + } + + store.removeAllResources() + store.load(bundle: firstMockPatient) + } + } + } + if showBundleSelection { + Section { + if bundles.isEmpty { + HStack { + Spacer() + ProgressView() + Spacer() + } + } else { + FHIRBundleSelector(bundles: bundles) + .pickerStyle(.inline) + } + } + } + } + .task { + self.bundles = await ModelsR4.Bundle.llmOnFHIRMockPatients + } + .onAppear { + showBundleSelection = !standard.useHealthKitResources + } + .navigationTitle(Text("Resource Settings")) + } +} diff --git a/Intake/Settings/SettingsView.swift b/Intake/Settings/SettingsView.swift new file mode 100644 index 0000000..1ae22ac --- /dev/null +++ b/Intake/Settings/SettingsView.swift @@ -0,0 +1,113 @@ +// +// This source file is part of the Stanford LLM on FHIR project +// +// SPDX-FileCopyrightText: 2023 Stanford University +// +// SPDX-License-Identifier: MIT +// + +//import SpeziFHIRInterpretation +//import SpeziOpenAI +import SwiftUI + + +struct SettingsView: View { + private enum SettingsDestinations { + case openAIKey + case openAIModel + case resourceSelection + case promptSummary + case promptInterpretation + case promptMultipleResourceInterpretation + } + + @State private var path = NavigationPath() + @Environment(\.dismiss) private var dismiss + + + var body: some View { + NavigationStack(path: $path) { + List { + //openAISettings + //speechSettings + //resourcesLimitSettings + resourcesSettings + //promptsSettings + } + .navigationTitle("SETTINGS_TITLE") + .navigationDestination(for: SettingsDestinations.self) { destination in + navigationDesination(for: destination) + } + .toolbar { + ToolbarItem(placement: .cancellationAction) { + Button("FHIR_RESOURCES_CHAT_CANCEL") { + dismiss() + } + } + } + } + } + + /* + private var speechSettings: some View { + Section("SETTINGS_SPEECH") { + Toggle(isOn: $enableTextToSpeech) { + Text("SETTINGS_SPEECH_TEXT_TO_SPEECH") + } + } + } + + private var resourcesLimitSettings: some View { + Section("Resource Limit") { + Stepper(value: $resourceLimit, in: 10...2000, step: 10) { + Text("Resource Limit \(resourceLimit)") + } + } + } + */ + + private var resourcesSettings: some View { + Section("Resource Selection") { + NavigationLink(value: SettingsDestinations.resourceSelection) { + Text("Resource Selection") + } + } + } + + /* + private var openAISettings: some View { + Section("SETTINGS_OPENAI") { + NavigationLink(value: SettingsDestinations.openAIKey) { + Text("SETTINGS_OPENAI_KEY") + } + NavigationLink(value: SettingsDestinations.openAIModel) { + Text("SETTINGS_OPENAI_MODEL") + } + } + } + + private var promptsSettings: some View { + Section("SETTINGS_PROMPTS") { + NavigationLink(value: SettingsDestinations.promptSummary) { + Text("SETTINGS_PROMPTS_SUMMARY") + } + NavigationLink(value: SettingsDestinations.promptInterpretation) { + Text("SETTINGS_PROMPTS_INTERPRETATION") + } + NavigationLink(value: SettingsDestinations.promptMultipleResourceInterpretation) { + Text("SETTINGS_PROMPTS_INTERPRETATION_MULTIPLE_RESOURCES") + } + } + } + */ + + private func navigationDesination(for destination: SettingsDestinations) -> some View { + Group { + switch destination { + case .resourceSelection: + ResourceSelection() + default: EmptyView() + } + } + } +}