Python scripts used in the FHIR integration pipeline to clean input data for different external sources.
This is a repository of Python scripts used in the FHIR integration pipeline to clean input data for different external sources.
There are 4 types of scripts:
scripts/customUser defined scripts to perform specific tasks like cleaning a Patient phone number for example
scripts/utilsBasic scripts (like capitalize, test if empty, etc.)
scripts/logic(Beta) Scripts that operate like logic statement and take other scripts as argument
scripts/custom can be extended by users, either by completing new scripts or by adding new ones when no one is addressing their needs. This is done using the API.
The API can be used either as a small web service, or directly accessed through the Pyrog interface.
To set up the API:
set GITHUB_TOKEN=<your_github_token> flask run
docker-compose up --build
docker build -t cleaning-scripts:latest . docker run -p 5000:5000 --env-file=app/.env cleaning-scripts
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