Tutorial:Help demonstrate reproducibility in bioinformatics with the GA4GH's tool execution Challenge
0
2
Entering edit mode
4.6 years ago

The Global Alliance for Genomics and Health (GA4GH) tool execution challenge is a crowdsourced effort to demonstrate that the common workflow language (CWL) or the workflow description language (WDL) can execute tools and workflows reproducibly across many different computational environments. The challenge goal is to have as many people as possible run the CWL or WDL code, docker container and input files provided by the challenge in your environment of choice, then submit documentation of the process and the results of the analysis to the synapse page. Challenge participants will be included on a manuscript co-published by GA4GH/NIH/NCI Containers and Workflow Groups.

Seven Bridges has developed the Rabix Executor, an open source tool, that allows developers to easily use applications shared in docker containers, and run that application according to the exact description defined by the Common Workflow Language or CWL.

Phase I of the challenge is to run a simple md5sum tool, and I've created a short tutorial video to demonstrate how to run the tool using the Rabix Executor. You can find the video at https://youtu.be/sZpHnivizPY. Please note that you need Docker and Java Runtime Environment (version 8+) installed in order to run Rabix!

CWL Rabix GA4GH Docker Tutorial • 1.4k views
ADD COMMENT
0
Entering edit mode

Should this post have "tool" tag rather than "tutorial"?

ADD REPLY
0
Entering edit mode

Do you mean simply remove the tutorial tag, or move the post to the tools forum?

ADD REPLY
0
Entering edit mode

Replace the tutorial with tool tag if that is more appropriate by editing OP.

ADD REPLY

Login before adding your answer.

Traffic: 2716 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6