FHIR Chat · Python breakout Sydney WGM · python

Stream: python

Topic: Python breakout Sydney WGM

Ward Weistra (Feb 02 2020 at 10:18):

Cross post: https://chat.fhir.org/#narrow/stream/179207-connectathon-mgmt/topic/Python.20breakout

Eric Haas (Feb 03 2020 at 06:19):

Sydney 2020 HL7 Connecthon Python Breakout Session

Harold Solbrig presented current state of the Smart FHIR Parser for python.

fhir-parser untouched
fhir templates (fhir-model-generator) modified to utilize Python dataclasses
- hints
- syntactical sucre
split the fhirclient library from the models

Ilya Beda presented the fhir-py async/sync FHIR client for python3.
Next Steps

Create pip, pipenv based package based on Harold's fork of the fhir parser and templates
- plan R4+ major versions only
- @Harold Solbrig to provide dig data example for library
- @ Bob Milius to look at making a Jupyter Notebook as a howto generate local library for custom or intermediary versions
Ilya - to look at integration of models in FHIR into his sync/async library

Future steps
- generate models for profile
- fix primitives to handle Extensions
- FHIRpath? check existing libraries.
  - https://pypi.org/project/fhirpath/0.4.0/

Pascal Pfiffner (Feb 03 2020 at 07:22):

Sounds great!

Eric Haas (Feb 10 2020 at 23:30):

Here is a quick demo Jupyter file on Binder using @Harold Solbrig fork of the fhir-model-generator. It shows how to create the models locally and use them to create instances.

Eric Haas (Feb 10 2020 at 23:52):

Doesn't have the shortcuts that Harold has talked about. Hoping we are getting closer to that....

Eric Haas (Feb 12 2020 at 06:13):

Oops that link above is not working try this one instead:

Binder of My Python NoteBooks to share

:notebook: https://mybinder.org/v2/gh/Healthedata1/MyBinder/master

to start the Notebook:

click on the pyFHIR_models folder
click on the notebook file Howto_python_models.ipynb

( If anybody knows a more direct way to link to the actual Binder Notebook let me know)

P.s. it also shows how to go from excel-->pandas-->FHIR

Ilya Beda (Feb 18 2020 at 09:24):

I have started experimenting with the integration of models from Harold's library.
https://github.com/beda-software/fhir-py-experements/blob/master/fhir_model_experement.py

It seems that by using a simple adapter function you can use any kind of model layer with fhir-py.

Ward Weistra (Feb 18 2020 at 15:40):

Don't understand the code, but that's great news!

Eric Haas (Mar 10 2020 at 03:37):

@Harold Solbrig Could we do this with the fhir_model_generator?

https://github.com/Healthedata1/MyBinder/blob/master/pyFHIR_models/could_we_do_this.ipynb

Last updated: Apr 12 2022 at 19:14 UTC