galaxy-tool-wrapping
CommunityMaster Galaxy tool wrappers with Planemo.
System Documentation
What problem does it solve?
Galaxy tool wrappers enable seamless integration of command-line tools into the Galaxy platform, but creating robust XML wrappers, ensuring correct dependencies, and validating tool behavior can be complex. This skill provides a structured guide and best practices to design, test, and publish Galaxy tool wrappers using XML, Planemo, and Tool Shed metadata.
Core Features & Use Cases
- Wrapper authoring: Develop well-formed Galaxy tool wrappers (XML) with precise inputs, outputs, and metadata.
- Planemo testing: Validate wrappers using planemo lint, planemo test, and local Galaxy workflows.
- Troubleshooting & debugging: Diagnose common wrapper issues via dedicated documentation and debugging workflows.
- Use Case: A researcher wraps a CLI tool into a Galaxy tool, ensures tests pass, pins dependencies, and submits to the Tool Shed.
Quick Start
Begin by setting up a minimal wrapper (tool.xml), define inputs/outputs, add a few tests, and run planemo lint followed by planemo test to iterate quickly.
Dependency Matrix
Required Modules
None requiredComponents
💻 Claude Code Installation
Recommended: Let Claude install automatically. Simply copy and paste the text below to Claude Code.
Please help me install this Skill: Name: galaxy-tool-wrapping Download link: https://github.com/Delphine-L/claude_global/archive/main.zip#galaxy-tool-wrapping Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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