switch to prek to handle pre-commit rules#9406
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mashehu merged 8 commits intonf-core:masterfrom Nov 25, 2025
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mashehu force-pushed the switch-to-prek branch from 486900a to 619c83d Compare 
mashehu force-pushed the switch-to-prek branch from 619c83d to 4102645 Compare 
Co-authored-by: JulianFlesch <julianflesch@googlemail.com>
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| closing this until we have all files linted first |
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| @nf-core-bot fix linting |
maxulysse reviewed Nov 25, 2025
Co-authored-by: Maxime U Garcia <max.u.garcia@gmail.com>
cavenel pushed a commit to cavenel/modules that referenced this pull request Feb 5, 2026
* switch to prek to handle pre-commit rules * only run prek on changed files * Update .devcontainer/setup.sh Co-authored-by: JulianFlesch <julianflesch@googlemail.com> * add fetch step * Update .prettierrc.yml Co-authored-by: Maxime U Garcia <max.u.garcia@gmail.com> --------- Co-authored-by: JulianFlesch <julianflesch@googlemail.com> Co-authored-by: Maxime U Garcia <max.u.garcia@gmail.com>
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Faster (and hopefully friendlier maintained) drop-in replacement for pre-commit: prek.j178.dev/quickstart#already-using-pre-commit
See nf-core/website#3650 and nf-core/tools#3899 for the same in other contexts.