Lint a module

Run the nf-core modules lint command to check modules in the current working directory (pipeline or nf-core/modules clone) against nf-core guidelines.

• Use the --all flag to run linting on all modules found.
• Use --dir <pipeline_dir> to specify another directory than the current working directory.
• Use the --fix flag to fix all possible linting errors:
  • Write the correct input and output channels and channel structure. This will try to reuse the information existing in your meta.yml, and only change the structure of the file if needed. Make sure to check that the added changes are correct and update description, pattern and type values accordingly.
  • Add the missing ontology entries to the input and output entries in meta.yml. It will add the proper ontology entries based on the specified pattern. Make sure to add any missing ontology URLs.
  • Add a bio.tools identifier for the tool.