Warning

This repository is deprecated. Use terra-tools instead.

Tools for use with FireCloud

To run a given script using the run script:

• ./run.sh scripts/directory/script_name.py <arguments>

To run a giving script using Docker:

• docker run --rm -it -v "$HOME"/.config:/.config broadinstitute/firecloud-tools python /scripts/<script name.py> <arguments>

Prerequisites

• Install the Google Cloud SDK from https://cloud.google.com/sdk/downloads
• Set the Application Default Credentials (run gcloud auth application-default login)
• Python 2.7

When running without the run script or docker, check the packages that are pip installed in either run.sh or the Dockerfile.