`nf-core pipelines lint` silently suppresses all module linting on error.
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@JulianFlesch is already working on this.
Since Aug 20, 2026.
bug
- Dominant language
- Python
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Description
Description of the bug
If you run nf-core pipelines lint on a pipeline which has anything in its module directory which causes module linting to fail then the module linting is totally suppressed from the output with no obvious indication it failed or why.
An easy example to trigger this is to remove the meta.yml from one of the nf-core modules in the pipeline.
pipelines lint: suppresses errormodules lint:FileNotFoundError: meta.yml not found at modules/nf-core/repeatmodeler/repeatmodeler/meta.yml
Other examples that can cause this:
- failed patch application
- error in any local module
Command used and terminal output
System information
No response
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