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Get a SMART App launched

This guide explains how to get Growth Chart SMART App launched

Growth Chart is a sample SMART App which displays children growth data as plot.

Set Up Aidbox Project

First you need to specify your new SMART API using the Aidbox API Constructor.

Create the aidbox-project/single-patient-portal.edn file with the following content:

{ns single-patient-portal
 import #{zenbox
          aidbox.auth}

 root-api
 {:zen/tags #{zenbox/api}
  "smart" {:apis #{smart-api}}}

 grant-lookup-method
 {:zen/tags #{aidbox.auth/grant-lookup}
  :method aidbox.auth/single-patient-grant-lookup}

 smart-api
 {:zen/tags #{zenbox/api}

  :middlewares [:smart.fhir/single-patient-auth-middleware]

  ".well-known" {"smart-configuration" {:GET {:action :smart.fhir/smart-configuration
                                              :public true}}}
  "metadata" {:GET {:action :smart.fhir/capability
                    :public true}}
  "style-v1.json" {:GET {:action :smart.fhir/style
                         :public true}}

  "Patient" {[:id] {:GET {:action :smart.fhir/read
                          :resource/type "Patient"}}}

  "Observation" {:GET {:action :smart.fhir/search
                       :resource/type "Observation"
                       :params {:_count {}
                                :code {}
                                :patient {}}}}}}

Set Up Growth Chart

You need to create Standalone Patient Launch page for the Growth Chart. Create the growth-chart/standalone/patient.html file with the following content (which is just modified example from the Growth Chart repository):

<!DOCTYPE html>
<html lang="en">
  <head>
    <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
    <meta http-equiv="X-UA-Compatible" content="IE=edge" />
    <title>Growth Chart SMART Application</title>
    <script src="../node_modules/fhirclient/build/fhir-client.js"></script>
    <script>
      FHIR.oauth2.authorize({
        client_id: "growth-chart",
        scope: "patient/Observation.read patient/Patient.read fhirUser launch/patient",
        redirect_uri: "http://localhost:9000",
        iss: "http://localhost:8888/smart"
      });
    </script>
  </head>
  <body>Loading...</body>
</html>

Set Up Docker Compose

Create the Compose file which starts Aidbox, Growth Chart, and mounts volumes with their configuration.

docker-compose.yml:

services:
  aidboxdb:
    image: "healthsamurai/aidboxdb:13.2"
    pull_policy: always
    restart: on-failure:5
    volumes:
      - "./pgdata:/data"
    environment:
      POSTGRES_USER: "${PGUSER}"
      POSTGRES_PASSWORD: "${PGPASSWORD}"
      POSTGRES_DB: "${PGDATABASE}"
  aidbox:
    image: "healthsamurai/aidboxone:edge"
    pull_policy: always
    depends_on: ["aidboxdb"]
    restart: on-failure
    ports:
      - "8888:8888"
    env_file:
      - .env
    environment:
      PGHOST: "aidboxdb"
      PGPORT: "5432"
      AIDBOX_PORT: "8888"
      AIDBOX_FHIR_VERSION: "4.0.1"
      AIDBOX_ZEN_PROJECT: "/aidbox-project"
      AIDBOX_ZEN_ENTRY: "single-patient-portal"
      AIDBOX_DEV_MODE: 1
      AIDBOX_ZEN_DEV_MODE: "ok"
      AIDBOX_COMPLIANCE: "enabled"
    volumes:
      - "./aidbox-project:/aidbox-project"
  growth-chart:
    image: thezorkij/growth-chart-app:latest
    ports:
      - "9000:9000"
    volumes:
      - "./growth-chart/standalone:/app/standalone"

Create the .env file and fill in your Aidbox License ID and License Key:

AIDBOX_LICENSE_ID=
AIDBOX_LICENSE_KEY=

AIDBOX_BASE_URL=http://localhost:8888

# Client to create on start up
AIDBOX_CLIENT_ID=root
AIDBOX_CLIENT_SECRET=secret

# root user to create on start up
AIDBOX_ADMIN_ID=admin
AIDBOX_ADMIN_PASSWORD=secret

# db connection params
PGPORT=5432
PGUSER=postgres
PGPASSWORD=postgres
PGDATABASE=aidbox

Start Containers

run the docker-compose up command.

Configure Aidbox

You need to create Client, User, Patient, AccessPolicy, and load Observations.

Sign In

Go to http://localhost:8888 and login as admin then use Notebooks to run the following queries.

Create Client

PUT /Client/growth-chart

auth:
  authorization_code:
    audience:
      - http://localhost:8888/smart
    redirect_uri: http://localhost:9000/
smart:
  launch_uri: http://localhost:9000/launch.html
secret: gc
grant_types:
  - authorization_code

Create Patient

PUT /Patient/patient-1

idyaml: patient-1
name:
- given:
  - Marcus
  family: Berg
  use: usual
birthDate: '2000-12-27'
active: true 
gender: male

Create User

The user needs to be linked with a Patient resource

PUT /User/user

email: user@test.com
fhirUser:
  id: patient-1
  resourceType: Patient
password: '123456'

Create Role

POST /Role

name: Patient
user:
  id: user
  resourceType: User
links:
  patient:
    id: patient-1
    resourceType: Patient

Create Access policies

Allow Growth Chart to Access Patient Data

PUT /AccessPolicy/smart-read-patient-on-behalf

engine: matcho
matcho:
  uri: '#/smart/Patient/.*'
  params:
    id: .on-behalf.fhirUser.id

Allow Growth Chart to Access Patient Observations

PUT /AccessPolicy/smart-search-on-behalf

engine: matcho
matcho:
  uri: '#/smart/Observation'
  params:
    patient: .on-behalf.fhirUser.id

Load Observations and Encounters

POST /

type: transaction
entry:
- resource:
    id: enc-1
    status: finished
    class:
      system: http://terminology.hl7.org/CodeSystem/v3-ActCode
      code: AMB
      display: ambulatory
    period:
      start: '2003-11-28'
      end: '2003-11-28'
    subject:
      resourceType: Patient
      id: patient-1
  fullUrl: 'Encounter/enc-1'

  request:
    method: POST
    url: "/Encounter"

- resource:
    id: height-1
    encounter:
      uri: 'Encounter/enc-1'
    value:
      Quantity:
        system: http://unitsofmeasure.org
        unit: cm
        value: 115.316
        code: cm
    status: final
    effective:
      dateTime: '2003-11-28'    
    code:
      coding:
      - system: http://loinc.org
        code: 8302-2
        display: height
      text: height
    subject:
      resourceType: Patient
      id: patient-1
  fullUrl: 'Observation/height-1'

  request:
    method: POST
    url: "/Observation"

- resource:
    id: weight-1
    encounter:
      uri: 'Encounter/enc-1'
    value:
      Quantity:
        system: http://unitsofmeasure.org
        unit: kg
        value: 18.55193
        code: kg
    resourceType: Observation
    status: final
    effective:
      dateTime: '2003-11-28'
    code:
      coding:
      - system: http://loinc.org
        code: 3141-9
        display: weight
      text: weight
    subject:
      resourceType: Patient
      id: patient-1
  fullUrl: 'Observation/weight-1'

  request:
    method: POST
    url: "/Observation"

- resource:
    id: bmi-1
    encounter:
      uri: 'Encounter/enc-1'
    value:
      Quantity:
        system: http://unitsofmeasure.org
        unit: kg/m2
        value: 13.9
        code: kg/m2
    resourceType: Observation
    status: final
    effective:
      dateTime: '2003-11-28'
    code:
      coding:
      - system: http://loinc.org
        code: 39156-5
        display: bmi
      text: bmi
    subject:
      resourceType: Patient
      id: patient-1
  fullUrl: 'Observation/bmi-1'

  request:
    method: POST
    url: "/Observation"


- resource:
    status: finished
    id: enc-2
    class:
      system: http://terminology.hl7.org/CodeSystem/v3-ActCode
      code: AMB
      display: ambulatory
    period:
      start: '2004-11-28'
      end: '2004-11-28'
    subject:
      resourceType: Patient
      id: patient-1
  fullUrl: 'Encounter/enc-2'

  request:
    method: POST
    url: "/Encounter"

- resource:
    encounter:
      uri: 'Encounter/enc-2'
    value:
      Quantity:
        system: http://unitsofmeasure.org
        unit: cm
        value: 125.316
        code: cm
    resourceType: Observation
    status: final
    effective:
      dateTime: '2004-11-28'
    id: height-2
    code:
      coding:
      - system: http://loinc.org
        code: 8302-2
        display: height
      text: height
    subject:
      resourceType: Patient
      id: patient-1
  fullUrl: 'Observation/height-2'

  request:
    method: POST
    url: "/Observation"

- resource:
    encounter:
      uri: 'Encounter/enc-2'
    value:
      Quantity:
        system: http://unitsofmeasure.org
        unit: kg
        value: 22.55193
        code: kg
    resourceType: Observation
    status: final
    effective:
      dateTime: '2004-11-28'
    id: weight-2
    code:
      coding:
      - system: http://loinc.org
        code: 3141-9
        display: weight
      text: weight
    subject:
      resourceType: Patient
      id: patient-1
  fullUrl: 'Observation/weight-2'

  request:
    method: POST
    url: "/Observation"

- resource:
    encounter:
      uri: 'Encounter/enc-2'
    value:
      Quantity:
        system: http://unitsofmeasure.org
        unit: kg/m2
        value: 17.6
        code: kg/m2
    resourceType: Observation
    status: final
    effective:
      dateTime: '2004-11-28'
    id: bmi-2
    code:
      coding:
      - system: http://loinc.org
        code: 39156-5
        display: bmi
      text: bmi
    subject:
      resourceType: Patient
      id: patient-1
  fullUrl: 'Observation/bmi-2'

  request:
    method: POST
    url: "/Observation"

Launch Growth Chart

Log out

Log out from Aidbox.

Launch App

Open http://localhost:9000/standalone/patient.html it will redirect you to login page. Sign in as user and allow access to the data for the Growth Chart App.

Now you should be able to see a plot of Observations

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