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VICC normalization routine for therapies

Project description

Therapy Normalization

Services and guidelines for normalizing drug (and non-drug therapy) terms

Developer instructions

Following are sections include instructions specifically for developers.

Installation

For a development install, we recommend using Pipenv. See the pipenv docs for direction on installing pipenv in your compute environment.

Once installed, from the project root dir, just run:

pipenv sync

Data files

For now, data files supporting the normalizers need to be obtained independently. See issue #7 for progress on updaters.

Init coding style tests

Code style is managed by flake8 and checked prior to commit.

We use pre-commit to run conformance tests.

This ensures:

  • Check code style
  • Check for added large files
  • Detect AWS Credentials
  • Detect Private Key

Before first commit run:

pre-commit install

Running unit tests

Running unit tests is as easy as pytest.

pipenv run pytest

Starting the therapy normalization service

From the project root, run the following:

 uvicorn main:app --reload

Next, view the OpenAPI docs on your local machine:

http://127.0.0.1:8000/docs

Project details


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