hca-schema-validator 0.4.0

HCA schema validation for single-cell datasets

HCA Schema Validator

HCA-specific extensions for cellxgene schema validation.

Installation

From PyPI (Recommended)

pip install hca-schema-validator

From Source (Development)

# Clone the repository
git clone https://github.com/clevercanary/hca-validation-tools.git
cd hca-validation-tools/packages/hca-schema-validator

# Install Poetry if you haven't already
curl -sSL https://install.python-poetry.org | python3 -

# Install dependencies and package
poetry install

# Run tests
poetry run pytest tests/

Usage

from hca_schema_validator import HCAValidator

# Create validator instance
validator = HCAValidator()

# Validate an h5ad file
is_valid = validator.validate_adata("path/to/file.h5ad")

# Check results
if is_valid:
    print("✅ Validation passed!")
else:
    print("❌ Validation failed:")
    for error in validator.errors:
        print(f"  - {error}")

Development Status

Current Version: 0.1.0 - Minimal passthrough implementation

Currently a passthrough wrapper around cellxgene-schema Validator. HCA-specific validation rules will be added incrementally.

Testing

cd hca_schema_validator
poetry run pytest tests/

Project Structure

hca_schema_validator/
├── src/
│   └── hca_schema_validator/
│       ├── __init__.py       # Package exports
│       └── validator.py      # HCAValidator class
├── tests/
│   └── test_validator.py # Unit tests
├── pyproject.toml        # Poetry configuration & dependencies
└── README.md            # This file

License

MIT