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nf-core/pairgenomealign v3.0.2 – Tokoroten shiki

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@charles-plessy charles-plessy released this 17 Jul 07:44
3.0.2
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v3.0.2 "Tokoroten shiki" - [July 16th 2026]

This is a bugfix release, please make sure you also look at the 3.0.1 and 3.0.0 entries in the changelog.

Fixed

  • Restore maximum tandem repeat unit length to 400 for genome masking, to prevent running out of memory on centromeric repeats. LASTs default changed to 100 in version 1638, causing a regression in this pipeline's v3.0.0 release (#139)
  • Restore missing fasta in the target genome name indexed for CRAM files (#140).
  • Avoid collisions by adding .cuts to the name of the file defining the regions of more than 10 Ns in the target genome. (#138).
  • Fix blasttab+ export option by correcting Nextflow schema. Thanks, @sapunyangkut (#141).
  • Fix blasttab+ format by upgrading LAST to version 1652 (no other changes). For consistency, Samtools and Bcftools were also upgraded (no visible changes expected).

Dependencies

Dependency Old version New version
LAST 1651 1652
BCFTOOLS 1.23.1 1.24
SAMTOOLS 1.23.1 1.24
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