| #!/bin/bash |
| |
|
|
| echo "==================================" |
| echo "Cancer@Home v2 - Setup" |
| echo "==================================" |
| echo "" |
|
|
| |
| echo "Checking Python installation..." |
| if command -v python3 &> /dev/null; then |
| PYTHON_VERSION=$(python3 --version) |
| echo "✓ Python found: $PYTHON_VERSION" |
| else |
| echo "✗ Python not found. Please install Python 3.8+" |
| exit 1 |
| fi |
|
|
| |
| echo "Checking Docker installation..." |
| if command -v docker &> /dev/null; then |
| DOCKER_VERSION=$(docker --version) |
| echo "✓ Docker found: $DOCKER_VERSION" |
| else |
| echo "✗ Docker not found. Please install Docker" |
| exit 1 |
| fi |
|
|
| |
| echo "" |
| echo "Creating Python virtual environment..." |
| python3 -m venv venv |
| echo "✓ Virtual environment created" |
|
|
| |
| echo "" |
| echo "Installing Python dependencies..." |
| source venv/bin/activate |
| pip install --upgrade pip |
| pip install -r requirements.txt |
| echo "✓ Dependencies installed" |
|
|
| |
| echo "" |
| echo "Creating directory structure..." |
| mkdir -p data/gdc |
| mkdir -p data/boinc |
| mkdir -p data/processed/fastq |
| mkdir -p data/processed/blast |
| mkdir -p data/processed/variants |
| mkdir -p data/cache |
| mkdir -p logs |
| echo "✓ Directories created" |
|
|
| |
| echo "" |
| echo "Starting Neo4j database..." |
| docker-compose up -d |
| sleep 10 |
| echo "✓ Neo4j started" |
|
|
| echo "" |
| echo "==================================" |
| echo "Setup Complete!" |
| echo "==================================" |
| echo "" |
| echo "To start the application:" |
| echo " 1. Activate virtual environment: source venv/bin/activate" |
| echo " 2. Run the application: python run.py" |
| echo "" |
| echo "Access points:" |
| echo " - Application: http://localhost:5000" |
| echo " - Neo4j Browser: http://localhost:7474 (neo4j/cancer123)" |
| echo " - API Docs: http://localhost:5000/docs" |
| echo "" |
|
|
