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Replaces futures-based parallelization with BiocParallel#21

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amcim merged 3 commits intomainfrom
biocparallel
Apr 27, 2026
Merged

Replaces futures-based parallelization with BiocParallel#21
amcim merged 3 commits intomainfrom
biocparallel

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@amcim amcim commented Apr 21, 2026

Description

Calls to futures libraries were changed to appropriate Biocparallel calls to prepare for Bioconductor submission. Output was validated against the previous implementation and results are identical. Runtime is unchanged.

Fixes #14

What kind of change(s) are included?

  • Feature (adds or updates new capabilities)
  • Bug fix (fixes an issue).
  • Enhancement (adds functionality).
  • Breaking change (these changes would cause existing functionality to not work as expected).

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Please ensure that all boxes are checked before indicating that this pull request is ready for review.

  • I have read and followed the CONTRIBUTING.md guidelines.
  • I have searched for existing content to ensure this is not a duplicate.
  • I have performed a self-review of these additions (including spelling, grammar, and related).
  • I have added comments to my code to help provide understanding.
  • I have added a test which covers the code changes found within this PR.
  • I have deleted all non-relevant text in this pull request template.
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@amcim amcim self-assigned this Apr 21, 2026
- Replaced apply functions with purrr helpers
- BiocParallel SnowParam usage, simplifying list binding and TSV processing.
- Update DESCRIPTION: add BiocParallel and Biostrings to Imports and remove furrr, future, and future.apply (also remove Biostrings from Suggests).
- Removed the .with_future_plan man page, wrap examples in \dontrun{...}
- fixed .gitignore to match *.Rcheck entries
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@jananiravi jananiravi left a comment

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@amcim, if you approve my minor updates, you can go ahead and merge. Thanks for this fix -- welcome to amR!

@amcim amcim merged commit 8f3ca94 into main Apr 27, 2026
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Change every parallel function to biocparallel

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