FTR from FHIR IG

Prerequisites

Download zen-ftr CLI: Download link

Creating Aidbox Configuration project

Create a directory project with following structure:

project/
  zen-package.edn #Package deps declaration
  resources/ig/
    gender-codesystem.json #CodeSystem resource, lightweight http://hl7.org/fhir/administrative-gender version 
    gender-valueset.json #ValueSet resource
    package.json #IG package meta
  zrc/
    system.edn #System entrypoint importing a ValueSet definion
    gender.edn # ValueSet definition

zen-package.edn

{:deps {}}

zrc/system.edn

{:ns system
 :import #{aidbox gender}
 
 box
 {:zen/tags #{aidbox/system}}}

This ValueSet definition confirms to zen.fhir ValueSet schema and has a :ftr property, it contains an FTR manifest that defines an IG source via :source-url property to create an expanded version of the ValueSet to be stored in the resulting FTR. For details about FTR manifest, please, refer to this page.

{ns gender
 import #{zen.fhir}
 gender-vs
 {:zen/tags #{zen.fhir/value-set}
  :zen.fhir/version "0.5.0"
  :uri "gender-vs"
  :ftr {:module "ig"
        :source-url "resources/ig/"
        :ftr-path "ftr"
        :tag "v1"
        :source-type :ig}}}

// resources/gender-codesystem.json
{
   "resourceType":"CodeSystem",
   "id":"gender-cs-id",
   "url":"gender-cs-url",
   "status":"active",
   "content":"complete",
   "concept":[
      {
         "code":"male",
         "display":"Male"
      },
      {
         "code":"female",
         "display":"Female"
      },
      {
         "code":"other",
         "display":"Other"
      },
      {
         "code":"unknown",
         "display":"Unknown"
      }
   ]
}

// resources/gender-valueset.json
{
   "resourceType":"ValueSet",
   "id":"gender-vs-id",
   "url":"gender-vs",
   "status":"active",
   "compose":{
      "include":[
         {
            "system":"gender-cs-url"
         }
      ]
   }
}

// resources/package.json
{
   "name":"ig",
   "version":"0.0.1",
   "type":"ig",
   "title":"ig",
   "description":"ig",
   "author":"hs",
   "url":"url"
}

Initialize this directory as a git repository and commit your initial set-up:

git init && git add . && git commit -m "init"

Generate FTR

Replace <PATH_TO_JAR> placeholder with absolute path to zen.jar.

Execute command listed below in project directory:

java -jar <PATH_TO_JAR> build-ftr

Commit FTR directory:

git add . && git commit -m "Build ftr"

Now you can run Aidbox with the following configuration project and use FHIR Terminology API methods like $validate-code/$lookup on generated diagnosis-vs ValueSet. Resource validation performed when someone invocates a FHIR REST operations will also validate ValueSet binding via FTR.

For detailed instructions about using Aidbox with Aidbox configuration project, please refer to this page.

Instruct Aidbox to load terminologies into the DB

Set the following environment variable:

BOX_FEATURES_FTR_PULL_ENABLE=true

By default, Aidbox does not load terminologies into the database as that can take a lot of disk space. This means that full terminology functionality won’t be available until you enable it manually. BOX_FEATURES_FTR_PULL_ENABLE environment variable is just for that. When you set it to true, Aidbox will load terminologies into the database on the next startup and start functioning as a fully-featured terminology server.

Further steps

For guidance on development and production usage, visit the links below:

For customizing Aidbox startup behavior when using FTR, read about FTR environment variables.

Last updated 7 months ago