WIP: Workflow management fundamentals side quest#674
Draft
pinin4fjords wants to merge 37 commits intomasterfrom
Draft
WIP: Workflow management fundamentals side quest#674pinin4fjords wants to merge 37 commits intomasterfrom
pinin4fjords wants to merge 37 commits intomasterfrom
Conversation
Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com>
…/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 <noreply@anthropic.com>
✅ Deploy Preview for nextflow-training ready!
To edit notification comments on pull requests, go to your Netlify project configuration. |
pinin4fjords
changed the base branch from
master
to
groovy-essentials-side-quest
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
2 participants
Add this suggestion to a batch that can be applied as a single commit.This suggestion is invalid because no changes were made to the code.Suggestions cannot be applied while the pull request is closed.Suggestions cannot be applied while viewing a subset of changes.Only one suggestion per line can be applied in a batch.Add this suggestion to a batch that can be applied as a single commit.Applying suggestions on deleted lines is not supported.You must change the existing code in this line in order to create a valid suggestion.Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be applied on multi-line comments.Suggestions cannot be applied while the pull request is queued to merge.Suggestion cannot be applied right now. Please check back later.
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.