biocwl-dash 0.0.6

Viewer for Mount Sinai IIDSGT Precision Oncology reports.

biocwl-dash

A Dash frontend for viewing the outputs of the biocwl precision oncology pipeline. Reports are interactive, and printable.

Usage

This dash app is meant to be embedded in a flask app. See test/test_main.py for an example implementation. The import method to use is biocwl_dash.app.init_app(server, prefix, report_service_factory), where:

• server is a flask app
• prefix is the URL prefix to prepend to all routes
• report_service_factory is an implementation of biocwl_dash.report_service.ReportService

Contributing

Setup your venv with:

python3 -m venv venv
source venv/bin/activate
pip install -e .
pip install setuptools wheel twine
brew install poppler

And rerun the final install whenever you add dependencies to setup.py.

Then, for development, run with:

PYTHONPATH=$PWD:$PYTHONPATH python test/test_main.py

Deployment / Pushing

Update your package with

python3 setup.py sdist bdist_wheel
twine upload dist/*
rm -rf dist

To make sure your dependencies are in order and that your package installs well, try doing a Docker build with:

docker build -t biocwldash . && docker run -p 5000:5000 biocwldash