WIP: Workflow management fundamentals side quest #674
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Co-authored-by: Copilot <[email protected]>
…/training into groovy-essentials-side-quest
This side quest demonstrates the benefits of workflow management systems by having users progressively build a bash script, experience its limitations firsthand, then see how Nextflow solves each problem. Key features: - Progressive hands-on approach: users build bash scripts incrementally - Experience problems before seeing solutions (sequential processing, resource conflicts, crashes, environment issues, no visibility) - Clear before/after comparisons with concrete time savings - Interactive exercises converting bash to Nextflow - Uses bacterial genome analysis as single exemplar throughout - Follows groovy_essentials conventions (tabs, console examples, etc.) Files added: - docs/side_quests/workflow_management_fundamentals.md (main tutorial) - side-quests/workflow_management_fundamentals/ (working examples) - process_samples.sh (bash script version) - main.nf (Nextflow workflow) - modules/ (modular process definitions) - data/samples.csv (sample metadata) - nextflow.config (configuration examples) 🤖 Generated with Claude Code (https://claude.com/claude-code) Co-Authored-By: Claude <[email protected]>
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pinin4fjords
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Just testing out the idea we had for a general intro to workflow management.
Completely AI starting point (from my own prompt), to be worked on later.