|
Introduction
|
CWL is a standard for describing workflows based on command-line tools
CWL workflows are written in a subset of YAML
A CWL workflow is more portable than a shell script
CWL supports software containers, supporting reproducibility on different machines
|
|
CWL and Shell Tools
|
A tool description describes the interface to a command line tool.
A workflow describes which command line tools to use in one or more steps.
A tool descriptor is defined using the ComandLineTool class.
FIXME: How can we use a tool descriptor in a single step workflow?
|
|
Developing Multi-Step Workflows
|
A multi-step workflow has multiple entries under the steps section
Workflow development can be an iterative process
A CWL workflow can be represented as a dependency graph, either to explain your workflow or as a planning tool
|
|
Resources for Reusing Tools and Scripts
|
|
|
Debugging Workflows
|
Run the workflow with the --validate option to check for errors
The --debug option will output more information
‘Wiring’ errors won’t necessarily yield an error message
|
|
More information
|
|