How to Query Live FHIR Data in Perplexity MacOS Desktop

Perplexity is an AI-powered research and answer engine that allows users to combine web search, structured data, and connected tools through a unified conversational interface. With Perplexity Desktop for macOS, users can bring local tools and data sources directly into their workflow using MCP, enabling fast, context-aware insights powered by live data.

Model Context Protocol (MCP) is an emerging, open-source standard for connecting LLMs with external services and enterprise data sources. Using MCP Servers, AI clients such as Perplexity Desktop can securely interact with applications and data, performing actions, retrieving live information, and enabling natural language access to data.

CData Code Assist MCP provides schema-aware context to AI tools — whether you're using it for AI-assisted code generation in IDEs like Cursor, or for querying live data through chat interfaces like Perplexity Desktop.

In this article, we guide you through installing CData Code Assist MCP for FHIR, configuring the connection to FHIR, and interacting with your live FHIR data from Perplexity Desktop.

Step 1: Download and install CData Code Assist MCP for FHIR

1. To begin, download CData Code Assist MCP for FHIR 👁 Downloading the CData Code Assist MCP installer
   
2. Find and double-click the installer to begin the installation
3. Drag the Code Assist MCP app into the Applications folder 👁 Completing the Code Assist MCP installation
   

When the installation is complete, you are ready to configure Code Assist MCP by connecting to FHIR.

NOTE: Since you downloaded the application from the internet and not the Apple App Store, you may see a warning that the application was not opened because Apple could not verify its security. You may continue with the installation.

Installing a trusted, unverified App

CData's solutions are trusted across the globe by some of the largest software vendors in the world. That said, if you have any concerns about continuing, please consult with your IT and/or security team.

1. In the warning message that pops up, click "Done"
2. Open "System Settings" on your machine and navigate to the "Privacy & Security" page
👁 Dismissing the notification

3. Scroll down to the "Security" section and click "Open Anyway" 👁 Installing a trusted, unverified App
   
4. Authorize the installation (passkey or password) 👁 Authorizing the installation
   

Step 2: Configure the Connection to FHIR

1. After installation, you can open CData Code Assist MCP for FHIR from the Applications folder on your mac 👁 The Code Assist MCP configuration wizard
   
2. Click the dropdown menu in MCP Configuration > Configuration Name and select "new configuration" 👁 Creating a new configuration
   
3. Name the configuration (e.g. "cdata_fhir") and click "OK" 👁 Naming the configuration
   

4. Enter the appropriate connection properties in the configuration wizard.

   Set URL to the Service Base URL of the FHIR server. This is the address where the resources are defined in the FHIR server you would like to connect to. Set ConnectionType to a supported connection type. Set ContentType to the format of your documents. Set AuthScheme based on the authentication requirements for your FHIR server.

   Generic, Azure-based, AWS-based, and Google-based FHIR server implementations are supported.

   Sample Service Base URLs

   • Generic: http://my_fhir_server/r4b/
   • Azure: https://MY_AZURE_FHIR.azurehealthcareapis.com/
   • AWS: https://healthlake.REGION.amazonaws.com/datastore/DATASTORE_ID/r4/
   • Google: https://healthcare.googleapis.com/v1/projects/PROJECT_ID/locations/LOCATION/datasets/DATASET_ID/fhirStores/FHIR_STORE_ID/fhir/

   Generic FHIR Instances

   The product supports connections to custom instances of FHIR. Authentication to custom FHIR servers is handled via OAuth (read more about OAuth in the Help documentation. Before you can connect to custom FHIR instances, you must set ConnectionType to Generic.

   👁 Configuring the Server connection.
   
5. Click "Connect" to authenticate with FHIR.
6. Click "Save Configuration" to save the configuration 👁 Saving the Code Assist MCP configuration
   

With Code Assist MCP configured, you are ready to connect it to Perplexity Desktop.

Step 3: Connect Code Assist MCP to Perplexity Desktop

1. Download the Perplexity Desktop application for macOS and sign in with your Pro or Premium account
2. Open Settings > Connectors. If the Perplexity Helper App is not installed, you will be prompted to download it. Install the Helper App, then restart Perplexity Desktop 👁 Downloading Perplexity Helper App
   
3. After restarting, return to Settings > Connectors and click Add Connector
4. Select the Simple tab and assign a name for the connector (e.g., "CData FHIR"). In the Command box, enter the absolute path to the Code Assist MCP executable.

   For example:

   	/Applications/CData Code Assist MCP for FHIR.app/Contents/Payload/jre/Contents/Home/bin/java \
   	-jar /Applications/CData Code Assist MCP for FHIR.app/Contents/Payload/lib/cdata.mcp.fhir.jar \
   	cdata_fhir
   

   👁 Providing the MCP server command
   
5. Click Save. Code Assist MCP should now appear in the connector list with a "Running" status 👁 Connector successfully running
   

Step 4: Query Your Live FHIR data in Perplexity Desktop

1. Open a new chat in Perplexity Desktop. Click the Sources toggle and enable Code Assist MCP 👁 Selecting Code Assist MCP as a source
   
2. Start asking questions about your FHIR data. For example:

   "List all the tables available in my FHIR data connection."

   👁 Querying live data through MCP
   

Build with Code Assist MCP. Deploy with CData Drivers.

Download Code Assist MCP for free and give your AI tools schema-aware access to live FHIR data during development. When you're ready to move to production, CData FHIR Drivers deliver the same SQL-based access with enterprise-grade performance, security, and reliability.

Visit the CData Community to share insights, ask questions, and explore what's possible with MCP-powered AI workflows.