SETUP.md

Setup Instructions

Cloning from Source

This repository will be populated by cloning and adapting the existing image annotation tool:

# Clone the source repository
git clone https://github.com/Annotation-Garden/image-annotation.git temp-image-annotation

# Copy relevant files to this directory
cp -r temp-image-annotation/* .

# Remove temporary clone
rm -rf temp-image-annotation

Required Modifications

After cloning, the following changes are needed:

1. Branding Updates

• Replace logo with AGI logo (from assets repository)
• Update color scheme to match AGI theme
• Ensure logo is positioned top-left

2. HED Integration

• Enhance HED tag support
• Add HED validation
• Update documentation for HED workflows

3. BIDS Compliance

• Ensure output follows stimuli-BIDS specifications
• Add JSON sidecars for annotations
• Validate against BIDS schema

4. Documentation

• Update README with AGI context
• Add usage examples
• Document API if applicable

5. Repository Links

• Link to other AGI repositories
• Update references from personal to organization
• Add AGI footer/header

Testing

After modifications:

• Verify all functionality works
• Test HED integration
• Validate BIDS output
• Check responsive design with new branding