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Adds subworkflow for post assembly autocycler to make it easier to run autocycler in an nf-core pipeline. Takes a list of assemblies from different assemblers or different read subsamples of a single sample. Runs autocycler compress, cluster, trim, resolve and combine. Channel manipulation to label clusters and rename files to avoid collisions.

Closes #9785

PR checklist

  • This comment contains a description of changes (with reason).
  • Remove all TODO statements.
  • Broadcast software version numbers to topic: versions - See version_topics
  • Follow the naming conventions.
  • Ensure that the test works with either Docker / Singularity. Conda CI tests can be quite flaky:
    • For modules:
      • nf-core modules test <MODULE> --profile docker
      • nf-core modules test <MODULE> --profile singularity
      • nf-core modules test <MODULE> --profile conda
    • For subworkflows:
      • nf-core subworkflows test <SUBWORKFLOW> --profile docker
      • nf-core subworkflows test <SUBWORKFLOW> --profile singularity
      • nf-core subworkflows test <SUBWORKFLOW> --profile conda

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new subworkflow: fasta/consensus/autocycler

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