Story #4566

Updated by Tom Clegg over 6 years ago

The first page about running your own compute jobs (beyond using an existing template in Workbench) dives right into the deep end with bwa-mem and some UUIDs. http://doc.arvados.org/user/topics/running-pipeline-command-line.html

Before this page we need to
* introduce the relevant concepts of pipeline templates, pipeline instances, components, and jobs
* mention the basic features of pipeline templates
** e.g., @output_of@ and how data gets passed from one job to another in a pipeline with @output_of@
** how @script_parameters@ in a pipeline template relates to workbench UI, jobs, and task processes

* offer a couple of different scenarios, with a summary of the appropriate way to build and invoke pipelines in each case (with links to the examples on the other tutorial pages).

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