Nextflow Translator#35
Merged
rafaelfsilva merged 19 commits intowfcommons:mainfrom Jan 4, 2024
WOW-WorkflowScheduler:feature/nextflow_translator
Merged
Nextflow Translator#35rafaelfsilva merged 19 commits intowfcommons:mainfrom WOW-WorkflowScheduler:feature/nextflow_translator
rafaelfsilva merged 19 commits intowfcommons:mainfrom
WOW-WorkflowScheduler:feature/nextflow_translator
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rafaelfsilva
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Jan 4, 2024
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This PR adds a translator for the Nextflow workflow management system.
Implementation
The translator defines workflows only by their abstract tasks (wfcommons'
task.category) allowing Nextflow to deal with the task instances. This requires more code than a brute force solution would, but the result is a Nextflow-like definition of wfcommons workflows using Nextflow's common features like channels.Limitations
By using the Nextflow-like way to script a workflow we cannot support iterations (a task depending on another task with the same
task.category), because Nextflow does not either.Discussion
As it is a limitation of Nextflow itself, I did not implement any way of supporting iterations in a workflow, the code raises an error instead. Please tell me if you would like me to change this behavior.
I am interested in any feedback and I will gladly answer questions.