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nf-core modules lint --fix produces mangled output

bugSomething isn't workingSomething isn't working

Status: Open.

#3901 In nf-core/tools;

· TCLamnidis opened on Nov 14, 2025

Using task.process instead of "${task.process}" in eval crashes the linting

bugSomething isn't workingSomething isn't working

Status: Open.

#3889 In nf-core/tools;

· SPPearce opened on Nov 10, 2025

sub-workflows dependencies are only displayed when uninstalling a workflow, not when installing it

bugSomething isn't workingSomething isn't working

subworkflows

Status: Open.

#3871 In nf-core/tools;

· muffato opened on Nov 5, 2025

<code>validate_params</code> default to <code>true</code>, but nf-core guidelines says boolean parameters should default to <code>false</code>

Status: Open.

#3868 In nf-core/tools;

· Aratz opened on Nov 4, 2025

nf-core patch does not work on remote repos that contain binary/compressed files

bugSomething isn't workingSomething isn't working

Status: Open.

#3864 In nf-core/tools;

· chrisAta opened on Nov 3, 2025

<code>nf-core pipelines create-logo</code> has alignment issues

bugSomething isn't workingSomething isn't working

Status: Open.

#3863 In nf-core/tools;

· Aratz opened on Nov 3, 2025

Pipelines create: Add explicit opt-in for pipeline proposals

templatenf-core pipeline/component templatenf-core pipeline/component template

Status: Open.

#3857 In nf-core/tools;

· ewels opened on Oct 30, 2025

nf-core modules update throwing a stack trace.

bugSomething isn't workingSomething isn't working

Status: Open.

#3848 In nf-core/tools;

· mahesh-panchal opened on Oct 22, 2025

Linting a module with faulty ontology entry results in unspecific error message

bugSomething isn't workingSomething isn't working

Status: Open.

#3846 In nf-core/tools;

· jfy133 opened on Oct 22, 2025

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

bugSomething isn't workingSomething isn't working

linting

Status: Open.

#3844 In nf-core/tools;

· prototaxites opened on Oct 21, 2025

· 

3.6.0

nf-core pipelines bump-version: Additionally update nf-test snapshots

enhancement

Status: Open.

Enhancement

#3841 In nf-core/tools;

· jonasscheid opened on Oct 20, 2025

Add all template updates to a project board/pipeline project board if available.

Status: Open.

Enhancement

#3825 In nf-core/tools;

· edmundmiller opened on Oct 14, 2025