Scaffold Bactopia subworkflows with main.nf, tests, and configuration files.
npx skills add https://github.com/bactopia/bactopia --skill add-subworkflow
Please help me install this Agent Skill. Skill: add-subworkflow Source: https://github.com/bactopia/bactopia/tree/main/.claude/skills/add-subworkflow Command: npx skills add https://github.com/bactopia/bactopia --skill add-subworkflow
Scaffold a reusable Bactopia subworkflow that orchestrates one or more existing modules. It creates a main.nf file wired with GroovyDoc comments and a standard test scaffold, reducing boilerplate and ensuring a consistent interface for workflows.
Ask the AI to scaffold a new Bactopia subworkflow; it will create main.nf and the accompanying tests and config files.
High-intent search queries and answers about installing and using this skill.
You can scaffold a subworkflow by interactively selecting existing modules to include, which generates a GroovyDoc-enabled main.nf file alongside test skeletons and configuration scaffolds for orchestration.
Generating nf-test specs, a nextflow.config file, and test configuration files automatically during the subworkflow scaffolding process ensures consistent test coverage and reduces boilerplate.
Yes, you need existing modules because this scaffolding process is designed to glue existing modules together into a coherent orchestration layer with integrated testing.
Yes, the scaffolding process operates interactively to determine which modules are included and how test data should be discovery-driven for the generated nf-test specifications.
Scaffolding a subworkflow generates a GroovyDoc-enabled main.nf file, nf-test skeletons, and configuration scaffolds to reduce boilerplate and ensure a consistent workflow interface.
galaxyprojectRoute Nextflow conversion tasks to the appropriate Galaxy sub-skill.
langwatchDelegate implementation work to a coder agent from requirements or feature files.
bactopiaScaffold Bactopia modules from Bioconda packages with standard files and tests.
dralkhBuild, run, and debug Nextflow pipelines and nf-core workflows.
