Replace #252 #390
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Replace #252 #390
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* 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
* HiFiasm
- update hifiasm docker
- formulated resource allocation
- As requested, pipeline generate alternate contigs as well.
Note this essentially forces two assemblies on one set of FASTQs, as
haplotig-generating assemblies and alternate-generting 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 not offer any more
- only depends on a reference (e.g. T2T) for assembly evaluation (Quast)
kvg
approved these changes
Apr 5, 2023
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