4.3.0

Issues

• Add AST-grep lint foundations

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  nf-core/tools#4377·edmundmiller opened Jul 7, 2026 · Updated Jul 23, 2026·1/4
  1

• Flag legacy versions.yml topic outputs

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  nf-core/tools#4379·edmundmiller opened Jul 7, 2026 · Updated Jul 8, 2026·3/4
  1

• Flag legacy versions emits

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  nf-core/tools#4380·edmundmiller opened Jul 7, 2026 · Updated Jul 8, 2026·4/4
  1

• Migrate pipeline lint rules to AST-grep

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  nf-core/tools#4381·edmundmiller opened Jul 7, 2026 · Updated Jul 8, 2026·2/4
  1

• Request org details to fill in more template fields

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  nf-core/tools#4146·muffato opened Mar 29, 2026 · Updated Jul 23, 2026·Draft
  12

  

• Linting or GHA to test whether all modules of a module suite are updated

  enhancementlintingmodules
  nf-core/tools#4355 · Filter by author famosab opened on Jun 26, 2026 · 4.3.0
  1

• nf-core modules lint fails on patched modules with modified inputs/outputs

  bug
  nf-core/tools#3772 · Filter by author svarona opened on Sep 25, 2025 · 4.3.0

• Linting a subworkflow meta YML with components not present in the workflow throws a linting error

  buglinting
  nf-core/tools#3844 · Filter by author prototaxites opened on Oct 21, 2025 · 4.3.0

• Migrate to nf-core-utils plugin

  high-prioritytemplate
  Task

  nf-core/tools#3685 · Filter by author edmundmiller opened on Jul 22, 2025 · 4.3.0
  

• Handle deprecated and deleted modules/subworkflows gracefully

  enhancement
  nf-core/tools#4260 · Filter by author SPPearce opened on May 5, 2026 · 4.3.0

• meta.json stub file trips up meta_nf_meta_key linting

  bug
  nf-core/tools#4250 · Filter by author DLBPointon opened on Apr 29, 2026 · 4.3.0
  5

• nf-core modules lint --fix produces mangled output

  bug
  nf-core/tools#3901 · Filter by author TCLamnidis opened on Nov 14, 2025 · 4.3.0
  2

• Add docs_pages lint test

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  nf-core/tools#4475·erikrikarddaniel opened Sep 19, 2026 · Updated Oct 2, 2026
  1

• Template: add metro-map workflow diagram feature

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  nf-core/tools#4478·ewels opened Sep 21, 2026 · Updated Oct 5, 2026
  3

• Template: finish rather than terminate when a task runs out of retries

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  nf-core/tools#4506·erikrikarddaniel opened Oct 8, 2026 · Updated Oct 21, 2026
  1

• Add license header to module and subworkflow main.nf templates

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  nf-core/tools#4511·jfy133 opened Oct 9, 2026 · Updated Oct 20, 2026
  7

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

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  nf-core/tools#4497·rarestpreet opened Oct 6, 2026 · Updated Oct 9, 2026

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

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  nf-core/tools#4503·qiaobochi040726-source opened Oct 8, 2026 · Updated Oct 9, 2026
  1

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

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  nf-core/tools#4505·LouisLeNezet opened Oct 8, 2026 · Updated Oct 17, 2026
  5

• Preserve hand-written entries when regenerating container configs

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  nf-core/tools#4476·pinin4fjords opened Sep 21, 2026 · Updated Oct 13, 2026
  2

• Add support to Apple container in tools

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  nf-core/tools#4444·mribeirodantas opened Aug 16, 2026 · Updated Oct 13, 2026
  64

  

• Update AWS Megatest Launch Action

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  nf-core/tools#4518·FriederikeHanssen opened Oct 15, 2026 · Updated Oct 22, 2026
  14

• Allow nf-core modules update <tool> to update a whole tool family

  command line toolsenhancement
  nf-core/tools#4526 · Filter by author famosab opened on Oct 19, 2026 · 4.3.0

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

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  nf-core/tools#4531·prototaxites opened Oct 20, 2026 · Updated Oct 21, 2026
  1

• avoid prek input overload and forward --verbose to it

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  nf-core/tools#4272·mashehu opened May 8, 2026 · Updated Oct 23, 2026
  1