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bump bedtools sort#346

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hexylena merged 5 commits intodevelopfrom
churra-scylla
Jul 29, 2025
Merged

bump bedtools sort#346
hexylena merged 5 commits intodevelopfrom
churra-scylla

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@hexylena
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@hexylena hexylena commented Jul 7, 2025

Checklist

  • Pull request details were added to CHANGELOG.md.
  • Documentation was updated (if required).
  • parameter_meta was added/updated (if required).
  • Submodule branches are on develop or a tagged commit.

the -faidx argument was first added to bedtools sort command in the version directly after the decade old version currently in use:
arq5x/bedtools2@83c6faa

@hexylena
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hexylena commented Jul 7, 2025

Background: both of these changes require features added to bedtools only within the version subsequent to the currently in use version.

Query: do we swap to the next newer version (from still almost a decade ago), or just swap to the latest version possibly introducing bigger changes?

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Jumping to the latest version is fine. Unless the developer sucks and the latest version just segfaults even in the most common use cases. (Looking at you dragmap!)

@hexylena hexylena merged commit 5622aba into develop Jul 29, 2025
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@hexylena hexylena deleted the churra-scylla branch February 16, 2026 11:46
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2 participants