James Fellows Yates
01/26/2026, 8:50 AMNicolas Vannieuwkerke
01/26/2026, 8:54 AMJames Fellows Yates
01/26/2026, 8:55 AMPhil Ewels
01/26/2026, 8:56 AMPhil Ewels
01/26/2026, 8:56 AMJames Fellows Yates
01/26/2026, 8:57 AMJames Fellows Yates
01/26/2026, 8:57 AM═ Options ════════════════════════════════════════════════════════════════════════════════════════
--dir -d [<pipeline/modules directory>]
--registry -r Registry to use for containers. If not specified it will use docker.registry
value in the nextflow.config file [<registry>]
--key -k Run only these lint tests [<test>]
--all -a Run on all modules
--fail-warned -w Convert warn tests to failures
--local Run additional lint tests for local modules
--passed Show passed tests
--sort-by Sort lint output by module or test name. [module|test] (Default: test)
--fix-version Fix the module version if a newer version is available
--fix Fix all linting tests if possible.
--help -h Show this message and exit.Phil Ewels
01/26/2026, 8:57 AMnf-core modules lint --fix and get it to fix it automatically?James Fellows Yates
01/26/2026, 8:57 AMJames Fellows Yates
01/26/2026, 8:57 AMPhil Ewels
01/26/2026, 8:58 AMis it?It is for
pipelines lint, maybe not modules lintJames Fellows Yates
01/26/2026, 8:58 AMNiklas Schandry
01/26/2026, 1:11 PMterminal.integrated.macOptionClickForcesSelection ):Niklas Schandry
01/26/2026, 1:13 PMPhil Ewels
01/26/2026, 2:06 PM