Project also called “Team”
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Workflow type
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See Supported workflow types
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Organisation
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Space
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Main workflow file
(mandatory)
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This is the main workflow file that has to be uploaded/referenced.
Specify the Workflow type of the main workflow in the dropdown list:
- Common Workflow Language(.cwl),
- Galaxy(.ga),
- KNIME(.knwf),
- Nextflow(.nf) or
- Snakemake(.snake).
- If your workflow type is not listed, please choose other
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Git repository
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Remote file URL
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CWL abstract
(optional)
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The CWL abstract is used as a summary of the workflow to parse for example the description (doc) if provided or to generate a svg diagram. If you have a Galaxy workflow you can generate the CWL abstract with galaxy2cwl. If your main workflow is a CWL workflow, you can skip this step. In the future it will also be possible to convert other workflow types to CWL abstract.
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Diagram
(optional)
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If your main workflow file is CWL or you give a CWL abstract, the diagram is automatically generated by the WorkflowHub website. In any other case you want a diagram in the RO-Crate and on the WorkflowHub website, you will have to supply one yourself. In the upload/reference fields you can attach your diagram in .svg (preferred) or .jpeg/.png.
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RO-Crate
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Research Object Crate: https://www.researchobject.org/ro-crate/
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How to use Galaxy
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Information on how to use galaxy can be found on the Galaxy Training Network.
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Extract a workflow from the History
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This is the most easy way to generate a Galaxy workflow and is extensively explained here.
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Editing a Galaxy workflow
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Using the Galaxy workflow editor it is recommended to add tags and/or add for example the tutorial title as Annotation/Notes. More information on how to use the editor can be found here in the "The workflow editor" section.
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Galaxy to CWL abstract
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Galaxy workflows can easily be converted to CWL abstract with galaxy2cwl. This can be seen as a standardized summary of the workflow that can be interpreted by WorkflowHub. CWL abstract can also be used to generate a diagram.
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Uploading to WorkflowHub
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Since it is not possible to reference a workflow in a Galaxy instance, you either have to download the workflow file and upload it to WorkflowHub, or make an RO-Crate following the steps below. You can still reference the workflow in the galaxy instance using the source property in the metadata of the registration.
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