4.3.0

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•Last updated Nov 5, 2026

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Add AST-grep lint foundations
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#4377 opened Jul 7, 2026 · Updated Nov 2, 2026
1
Flag legacy versions.yml topic outputs
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#4379 opened Jul 7, 2026 · Updated Oct 29, 2026
1
Flag legacy versions emits
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#4380 opened Jul 7, 2026 · Updated Oct 29, 2026
1
Migrate pipeline lint rules to AST-grep
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#4381 opened Jul 7, 2026 · Updated Oct 29, 2026
1
Request org details to fill in more template fields
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#4146 opened Mar 29, 2026 · Updated Nov 2, 2026Draft
14
Linting or GHA to test whether all modules of a module suite are updated
nf-core/tools#4355 · opened on Jun 26, 2026 · 4.3.0
1
nf-core modules lint fails on patched modules with modified inputs/outputs
nf-core/tools#3772 · opened on Sep 25, 2025 · 4.3.0
Linting a subworkflow meta YML with components not present in the workflow throws a linting error
nf-core/tools#3844 · opened on Oct 21, 2025 · 4.3.0
Migrate to nf-core-utils plugin
Task
nf-core/tools#3685 · opened on Jul 22, 2025 · 4.3.0
Handle deprecated and deleted modules/subworkflows gracefully
nf-core/tools#4260 · opened on May 5, 2026 · 4.3.0
meta.json stub file trips up meta_nf_meta_key linting
nf-core/tools#4250 · opened on Apr 29, 2026 · 4.3.0
5
nf-core modules lint --fix produces mangled output
nf-core/tools#3901 · opened on Nov 14, 2025 · 4.3.0
2
Add docs_pages lint test
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#4475 opened Sep 19, 2026 · Updated Nov 2, 2026
1
Template: add metro-map workflow diagram feature
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#4478 opened Sep 21, 2026 · Updated Nov 2, 2026
3
refractor: add nf-schema comment to the plugin import and sample sheet channel generation
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#4497 opened Oct 6, 2026 · Updated Nov 2, 2026
Add -w/--fail-warned to nf-core pipelines schema lint
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#4503 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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#4505 opened Oct 8, 2026 · Updated Nov 2, 2026
5
Preserve hand-written entries when regenerating container configs
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#4476 opened Sep 21, 2026 · Updated Nov 2, 2026
2
Add support to Apple container in tools
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#4444 opened Aug 16, 2026 · Updated Nov 2, 2026
64
Allow nf-core modules update <tool> to update a whole tool family
nf-core/tools#4526 · opened on Oct 19, 2026 · 4.3.0
fix(component): fix included component names for external orgs
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#4531 opened Oct 20, 2026 · Updated Nov 2, 2026
1
avoid prek input overload and forward --verbose to it
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#4272 opened May 8, 2026 · Updated Nov 4, 2026
3

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4.3.0

Add AST-grep lint foundations

Flag legacy versions.yml topic outputs

Flag legacy versions emits

Migrate pipeline lint rules to AST-grep

Request org details to fill in more template fields

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

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

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

Migrate to nf-core-utils plugin

Handle deprecated and deleted modules/subworkflows gracefully

meta.json stub file trips up meta_nf_meta_key linting

nf-core modules lint --fix produces mangled output

Add docs_pages lint test

Template: add metro-map workflow diagram feature

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

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

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

Preserve hand-written entries when regenerating container configs

Add support to Apple container in tools

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

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

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

Issues