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Migrate to Nextflow #5

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vinjana opened this issue Dec 7, 2020 · 0 comments
Open

Migrate to Nextflow #5

vinjana opened this issue Dec 7, 2020 · 0 comments
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Migrate to Nextflow

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@vinjana
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vinjana commented Dec 7, 2020 •
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Currently, the RNA-seq workflow basically is a Bash-workflow wrapped into Roddy.

  • Migrate the single job into Nextflow.
  • Remove/rename all references to RODDY_ from the scripts
  • Migrate also the resource requirements. Start with the xl resource set
  • Do not start yet refactoring jobs.
  • The Nextflow workflow should run on the dkfzLsf profile using the existing environment modules.
  • Document the workflow usage (example call, variables)
@vinjana vinjana added this to the Migrate to Nextflow milestone Dec 7, 2020
This was referenced Dec 7, 2020
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Migrate to Nextflow
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