DOCKER_SETUP.md

# Docker Setup Instructions

## If you need to build the Docker image from scratch:

1. **Create the Dockerfile** (copy from `Dockerfile.example`):
   ```bash
   cp Dockerfile.example Dockerfile
   ```

2. **Build the Docker image**:
   ```bash
   docker build -t medical-imaging/nodule-segmentation:latest .
   ```

3. **Verify the image was created**:
   ```bash
   docker images | grep medical-imaging
   ```

## If the image already exists:

You can check if it exists with:
```bash
docker images | grep medical-imaging/nodule-segmentation
```

If it shows the image, you can directly run the main script:
```bash
./scripts/DLCS24_KNN_2mm_Extend_Seg.sh
```

## Container Management

The script automatically:
- Removes any existing container with the same name
- Creates a new container
- Runs the segmentation pipeline
- Keeps the container running for potential debugging

To manually clean up containers:
```bash
docker rm -f nodule_seg_pipeline
```

To see running containers:
```bash
docker ps
```

To see all containers (including stopped):
```bash
docker ps -a
```