Planemo Galaxy Tool: Visual Query Builder Wrapper

This repository contains a Galaxy wrapper for Rejuve's Visual Query Builder for Human BioAtomspace, designed to be tested and deployed using Planemo and the Galaxy ToolShed.

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📦 Setup: Create .venv and Install Dependencies

1. Create a virtual environment

python3 -m venv .venv
source .venv/bin/activate

2. Install Planemo and required tools

pip install planemo

To verify installation:

planemo --version

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🚀 Uploading to the ToolShed

Tool Shed Targets

• Test Tool Shed: https://testtoolshed.g2.bx.psu.edu/
• Main Tool Shed: https://toolshed.g2.bx.psu.edu/

Upload to the Test Tool Shed

make upload-test

Or update an existing tool:

make update-test

Upload to the Main Tool Shed

make upload-shed

Or update an existing tool:

make update-shed

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📁 Project Structure

.
├── planemo.xml               # Your Galaxy tool definition
├── shed.yml               # Metadata for Tool Shed
├── scripts/
│   ├── test_tools.sh      # Script to test the tool
│   ├── upload_shed.sh     # Script to upload to Tool Shed
│   └── update_shed.sh     # Script to update Tool Shed
├── Makefile               # Task runner for test/upload
└── README.md              # This file

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🧰 Makefile Variables

You can adjust the following variables in the Makefile:

TEST_SHED = testtoolshed      # Upload/update target for testing
MAIN_SHED = toolshed          # Upload/update target for production
GALAXY_ROOT = $(shell pwd)/scripts/
VERSION = 0.0.1

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✅ Requirements

• Python 3.7+
• Bash (for shell scripts)
• Planemo
• Galaxy installation (for advanced testing, optional)

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