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https://www.commonwl.org
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Hello! This is a very interesting project. In case you haven't seen it, there's a project called [Common Workflow Language (CWL)](http://www.commonwl.org/) that attempts to create a single document sp…
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as per
https://github.com/common-workflow-language/common-workflow-language
1h to get started
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Create CommonWL "tool" interfaces for each CNVkit sub-command. Try to use these to improve integration with Galaxy and bcbio-nextgen.
Maybe wrap "batch" as a workflow instead of a tool -- not sure ho…
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See https://github.com/common-workflow-language/common-workflow-language/issues/104
Tasks: produce Galaxy workflow following the instructions at https://github.com/nekrut/galaxy/wiki/Reference-based-…
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We could provide a visual rendering of process Application Package and workflows using these tools.
Directly with `cwltool`!
https://github.com/common-workflow-language/cwltool/commit/cbc33f3ee9…
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Want to be able to reshape outputs on the workflow step, e.g. similar to outputEval on CommandLineTool.
Should include a way to bind outputs from the 'run' process that are not propagated to the st…
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- [x] demonstrate re-usable custom types https://github.com/common-workflow-language/common-workflow-language/issues/438
- [ ] demonstrate use of scicrunch.org to find IRIs for SoftwareRequirement ht…
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The extensions can be found here:
* https://github.com/common-workflow-language/cwltool/blob/main/cwltool/extensions.yml
* https://github.com/common-workflow-language/cwltool/blob/main/cwltool/exten…
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Doc fields should support markup.
Possible approaches:
* HTML only with a restricted tag set
* markdown (commonmark) (converts to HTML, can embed HTML)
* Something else?
* multiple markup lan…