All pull requests

Pull requests

• add nf-core completion command to set up shell tab completion

  #4609·mashehu opened Nov 12, 2026Member·

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  3

• modules lint: fail when a meta.yml conda lock_file does not exist

  #4608·pinin4fjords opened Nov 11, 2026Member·3 tasks done·

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  1

  1

• add records and types to templates and meta.yml generator

  #4602·mashehu opened Nov 9, 2026Member·

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  5

• add architecture as parameter to nf-core pipelines download

  #4601·mashehu opened Nov 9, 2026Member·

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  · 5.0.0
  1

• template: include container configs in nextflow.config

  #4600·mashehu opened Nov 9, 2026Member·

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  1

• convert pixi lock files to conda-lock files

  #4599·mashehu opened Nov 9, 2026Member·

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  · 5.0.0
  1

• add type hints to commands

  #4594·mashehu opened Nov 5, 2026Member·

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  16

• limit get_wf_files to only consider files not ignored by git

  #4593·mashehu opened Nov 5, 2026Member·

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  5

• fix: allow underscores in GitHub username validation

  awaiting-feedback
  #4582·swastiktawate opened Nov 2, 2026·

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  1

  1

• Update pre-commit hooks

  #4577·renovate[bot] opened Nov 1, 2026Bot·1 task·

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  2

• Fix argument names in validate_file_md5, get_commit_info and init_mod_name docstrings

  #4566·mmporong opened Oct 28, 2026·1 of 4 tasks·

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  2

• Lock file maintenance

  #4562·renovate[bot] opened Oct 26, 2026Bot·1 task·

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  2

• fix(modules): support container builds for installed nf-core modules

  #4551·Daesun-Ryu opened Oct 24, 2026·2 of 4 tasks·

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  2

• fix(component): fix included component names for external orgs

  #4531·prototaxites opened Oct 20, 2026Contributor·1 of 4 tasks·

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  · 4.3.0
  1

• Experimental: scaffold AWS full test output snapshots

  #4524·adamrtalbot opened Oct 16, 2026Contributor·3 of 4 tasks·

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  1

• Overhaul pipeline template docs structure

  #4522·jfy133 opened Oct 16, 2026Member·4 tasks·

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  3

• Resolve template merge conflicts in nf-core pipelines sync

  #4519·paulinefx opened Oct 15, 2026·

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  4

• Add ${params.XXX} and ${projectDir} interpolation when comparing schema and config default params values.

  #4505·LouisLeNezet opened Oct 8, 2026Contributor·4 tasks·

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  · 4.3.0
  1

  5

• Add -w/--fail-warned to nf-core pipelines schema lint

  #4503·qiaobochi040726-source opened Oct 8, 2026·

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  · 4.3.0
  1

  1

• refractor: add nf-schema comment to the plugin import and sample sheet channel generation

  #4497·rarestpreet opened Oct 6, 2026·2 of 4 tasks·

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  · 4.3.0

• Add a pre-commit hook that disallows the .view() operator

  #4496·prototaxites opened Oct 5, 2026Contributor·4 tasks·

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  7

• fix(lint): respect ignore_configs for multiqc_config's export_plots check

  #4492·jtremblay opened Oct 2, 2026·1 of 4 tasks·

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  6

• Skip included names that are not installed components when recreating installed_by

  #4491·pinin4fjords opened Oct 2, 2026Member·4 tasks done·

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  7

• Template: add metro-map workflow diagram feature

  #4478·ewels opened Sep 21, 2026Member·4 of 5 tasks·

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  · 4.3.0
  3

• Preserve hand-written entries when regenerating container configs

  #4476·pinin4fjords opened Sep 21, 2026Member·5 tasks done·

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  · 4.3.0
  2