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This repository has been archived by the owner on Aug 8, 2018. It is now read-only.
Hi!
I think we could have a generic AWSBatch configuration in cookiecutter.
Did so for ICGC-featureCounts but we could use a similar way (open for ideas if thats not optimal in your opinion):
AWSBatch config:
https://github.com/nf-core/ICGC-featureCounts/blob/master/conf/awsbatch.config
Main Nextflow.config / setting some defaults:
https://github.com/nf-core/ICGC-featureCounts/blob/master/nextflow.config
And then allowing users to specify the required params /also using that in the summary if the proper profile is used:
https://github.com/nf-core/ICGC-featureCounts/blob/4929959b77d13169a8c96ef4abec3ff8b8af314e/main.nf#L138
I guess this could as well be extrapolated to other pipelines easily and could be in cookiecutter therefore!
I'd be happy to contribute that but would like to have some more feedback/ideas on this before moving on...
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