Tutorial: Help demonstrate reproducibility in bioinformatics with the GA4GH's tool execution Challenge
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gravatar for adrian.sharma
2.8 years ago by
adrian.sharma20 wrote:

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!

docker rabix ga4gh tutorial cwl • 1.1k views
ADD COMMENTlink written 2.8 years ago by adrian.sharma20

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

ADD REPLYlink modified 2.8 years ago • written 2.8 years ago by genomax75k

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

ADD REPLYlink written 2.8 years ago by adrian.sharma20

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

ADD REPLYlink written 2.8 years ago by genomax75k
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