Working with the UKB RAP

Most of the interactions with the UK Biobank RAP is made directly from your local machine using the dx-toolkit.

Installing Dependencies

DNA Nexus Toolkit

First, install the dx-toolkit on your local computer by following the instructions on this page. You will also need to download the compiler.

For reference, a quickstart guide to the toolkit can also be found here.

Installing miniwdl (Optional)

If you want to check the workflow syntax and run the make check operations, you can also download miniwdl.

Cromwell (If you want to develop)

To run WDL workflows locally you will need cromwell as well. If you are planning to extend the capabilities of this package, this page will be of interest.

Logging in

Then you need to login to your UKB RAP account using:

dx login

You will be prompted for your username and password.