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@github-actions github-actions released this 09 Apr 02:58
3.0.65
2826f18
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Update hifiasm assembly (only) workflow (#390)

  • MAJOR CHANGES:

    • HiFiasm

      • update hifiasm docker
      • formulated resource allocation
      • As requested, pipeline generates alternate contigs as well.
        Note this essentially forces two assemblies on one set of FASTQs, as
        haplotig-generating assemblies and alternate-generating assemblies are
        generated with different options.

    • QUAST

      • update and shrink Quast docker
      • bigger disk for Quast task
      • now supports multiple assemblies being evaluated at the same time

    • It's almost reference-free now:

      • variant calling is no longer offered
      • only depends on a reference (e.g. T2T) for assembly evaluation (Quast)

  • MINOR CHANGES:

    • update various tasks
      • optionally compress files when finalizing
      • merge MergeFastqs and MergeFastqGzs into one task
      • more memory for MergeFastqs; uses LOCAL SSD when files are not too large
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