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Genome mapping doesn't work with large genomes when converting to bam #1

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KristinaGagalova opened this issue Jan 12, 2024 · 1 comment
Open

Genome mapping doesn't work with large genomes when converting to bam #1

KristinaGagalova opened this issue Jan 12, 2024 · 1 comment
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Reference to issues here

Minimap multi-part index doesn't output SQ fields

Options: check if mapping can be run without index output -d.
@KristinaGagalova KristinaGagalova self-assigned this Jan 12, 2024
@KristinaGagalova KristinaGagalova added the bug Something isn't working label Jan 12, 2024
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Error message

Command error:
  [M::mm_idx_gen::432.399*1.83] collected minimizers
  [M::mm_idx_gen::462.002*2.76] sorted minimizers
  [WARNING] For a multi-part index, no @SQ lines will be outputted. Please use --split-prefix

Some ideas to test:
idea1

KristinaGagalova added a commit that referenced this issue Jan 13, 2024
@KristinaGagalova
address #1 - creates index for large genomes where output contains SQ…
d2be179 
… fields
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