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sanger-tol / readmapping

Nextflow DSL2 pipeline to align short and long reads to genome assembly. This workflow is part of the Tree of Life production suite.
https://pipelines.tol.sanger.ac.uk/readmapping
MIT License
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Disable BWAMEM2_INDEX when no short read data #65

Closed priyanka-surana closed 1 month ago

priyanka-surana commented 1 year ago

Description of feature

To close this issue:

  1. Add conditional check to see if align_short will be run
  2. If not, BWAMEM2_INDEX should not be run

Currently it runs irrespective of the input read technology.