The connector can be used to create ETL applications and pipelines for CSV data in Python using Petl.

Install Required Modules

Install the Petl modules using the pip utility.

pip install petl

Connecting

After you import the modules, including the CData Python Connector for FHIR, you can use the connector's connect function to create a connection using a valid FHIR connection string. If you prefer not to use a direct connection, you can use a SQLAlchemy engine.

import petl as etl
import cdata.fhir as mod
cnxn = mod.connect("URL=http://test.fhir.org/r4b/;ConnectionType=Generic;ContentType=JSON;AuthScheme=None;")

Extract, Transform, and Load the FHIR Data

Create a SQL query string and store the query results in a DataFrame.

sql = "SELECT	Id, [address-city] FROM Patient "
table1 = etl.fromdb(cnxn,sql)

Loading Data

With the query results stored in a DataFrame, you can load your data into any supported Petl destination. The following example loads the data into a CSV file.

etl.tocsv(table1,'output.csv')