Skip to content
Elizabeth Shivers edited this page Aug 11, 2021 · 8 revisions

Introduction

OMOP-on-FHIR is a Java implementation of a FHIR Server (using HAPI FHIR) built on top of an OMOP CDM Database, providing a mapping layer in-between. For more information please visit the Official OMOP-on-FHIR website (http://omoponfhir.org/).

Navigation and Table of Contents

You may use the navigation side bar to browse this Wiki or follow the sections below.

  1. Introduction/Home
    • This page. Provides an overview of OMOP-on-FHIR and relevant external links.
  2. Setup and Configuration
    • Provides basic setup information as well as an overview of environment variables.
  3. Deployment with Docker
    • Provides a guide to a quick deployment including an OMOP CDM database using Docker.

Core Repos

The following repositories contain pre-configured deployments for common version combinations of OMOP-on-FHIR. In addition to setting versions, some repositories are configured to use alternative database modules based on specific use cases, with the options being the default JPA versions and the SQLRender version (which is intended for use with Google Big Query). Please be aware that the submodules defined in these repositories may fall behind the most recent versions available in the individual module repository.

OMOP-on-FHIR Main Repository

  • This is the core repository which provides OMOP-on-FHIR configured to use FHIR R4 and OMOP CDM v6.0. This repository will always be set to the latest versions available.
  • FHIR Version: R4
  • OMOP Version: 6.0
  • Database Connection: JPA

OMOP-on-FHIR DSTU 2 to 5.2 SQL Render Version

  • This version has been tested with Google Big Query.
  • FHIR Version: DSTU 2
  • OMOP Version: 5.2
  • Database Connection: SQLRender

OMOP-on-FHIR R4 to 5.2

  • FHIR Version: R4
  • OMOP Version: 5.2
  • Database Connection: JPA

OMOP-on-FHIR STU 3 to 5.2

  • FHIR Version: STU 3
  • OMOP Version: 5.2
  • Database Connection: JPA

OMOP-on-FHIR DSTU 2 to 5.2

  • FHIR Version: DSTU 2
  • OMOP Version: 5.2
  • Database Connection: JPA

Additional Links

HAPI FHIR

  • HAPI FHIR provides the Java FHIR libraries utilized by OMOP-on-FHIR, including some aspects of the FHIR Server implementation and FHIR Resource models.

OHDSI OMOP CDM Repository

  • OHDSI's OMOP CDM Repository, which includes links to documentation.