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Upload folder using huggingface_hub
Browse files- .gitattributes +5 -0
- .gitignore +72 -0
- DEPLOYMENT.md +166 -0
- VIDEO_SCRIPT.md +179 -0
- WRITEUP.md +232 -0
- app.py +2 -17
- kaggle_notebook.py +1005 -0
- requirements.txt +2 -2
- sample_data/.gitkeep +2 -0
- sample_data/WhatsApp Image 2026-01-29 at 15.28.44.jpeg +0 -0
- sample_data/WhatsApp Image 2026-01-29 at 15.29.29.jpeg +0 -0
- sample_data/WhatsApp Image 2026-01-29 at 15.31.01.jpeg +0 -0
- sample_data/WhatsApp Image 2026-01-29 at 15.31.50.jpeg +0 -0
- sample_data/WhatsApp Image 2026-01-29 at 15.34.18.jpeg +0 -0
- sample_data/real_cxr_1.png +3 -0
- sample_data/real_cxr_2.jpg +3 -0
- sample_data/real_cxr_bilateral.jpg +3 -0
- sample_data/real_cxr_opacity.png +3 -0
- sample_data/real_cxr_pneumonia.png +3 -0
- space.yaml +1 -1
- test_radioflow.py +187 -0
.gitattributes
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*.zip filter=lfs diff=lfs merge=lfs -text
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*.zst filter=lfs diff=lfs merge=lfs -text
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*tfevents* filter=lfs diff=lfs merge=lfs -text
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*.zip filter=lfs diff=lfs merge=lfs -text
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*.zst filter=lfs diff=lfs merge=lfs -text
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*tfevents* filter=lfs diff=lfs merge=lfs -text
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sample_data/real_cxr_1.png filter=lfs diff=lfs merge=lfs -text
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sample_data/real_cxr_2.jpg filter=lfs diff=lfs merge=lfs -text
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sample_data/real_cxr_bilateral.jpg filter=lfs diff=lfs merge=lfs -text
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sample_data/real_cxr_opacity.png filter=lfs diff=lfs merge=lfs -text
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sample_data/real_cxr_pneumonia.png filter=lfs diff=lfs merge=lfs -text
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.gitignore
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| 1 |
+
# Python
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| 2 |
+
__pycache__/
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| 3 |
+
*.py[cod]
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| 4 |
+
*$py.class
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| 5 |
+
*.so
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| 6 |
+
.Python
|
| 7 |
+
build/
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| 8 |
+
develop-eggs/
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| 9 |
+
dist/
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| 10 |
+
downloads/
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| 11 |
+
eggs/
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| 12 |
+
.eggs/
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| 13 |
+
lib/
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| 14 |
+
lib64/
|
| 15 |
+
parts/
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| 16 |
+
sdist/
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| 17 |
+
var/
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| 18 |
+
wheels/
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| 19 |
+
*.egg-info/
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| 20 |
+
.installed.cfg
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| 21 |
+
*.egg
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| 22 |
+
|
| 23 |
+
# Virtual Environment
|
| 24 |
+
venv/
|
| 25 |
+
ENV/
|
| 26 |
+
env/
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| 27 |
+
.venv/
|
| 28 |
+
|
| 29 |
+
# IDE
|
| 30 |
+
.idea/
|
| 31 |
+
.vscode/
|
| 32 |
+
*.swp
|
| 33 |
+
*.swo
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| 34 |
+
*~
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| 35 |
+
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| 36 |
+
# Jupyter
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| 37 |
+
.ipynb_checkpoints/
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| 38 |
+
*.ipynb
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| 39 |
+
|
| 40 |
+
# Model files (large)
|
| 41 |
+
*.bin
|
| 42 |
+
*.safetensors
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| 43 |
+
*.h5
|
| 44 |
+
*.pt
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| 45 |
+
*.pth
|
| 46 |
+
models/
|
| 47 |
+
|
| 48 |
+
# Data
|
| 49 |
+
*.csv
|
| 50 |
+
*.json
|
| 51 |
+
!package.json
|
| 52 |
+
*.parquet
|
| 53 |
+
data/
|
| 54 |
+
|
| 55 |
+
# Secrets
|
| 56 |
+
.env
|
| 57 |
+
.env.local
|
| 58 |
+
*.key
|
| 59 |
+
secrets/
|
| 60 |
+
|
| 61 |
+
# OS
|
| 62 |
+
.DS_Store
|
| 63 |
+
Thumbs.db
|
| 64 |
+
|
| 65 |
+
# Logs
|
| 66 |
+
*.log
|
| 67 |
+
logs/
|
| 68 |
+
|
| 69 |
+
# Cache
|
| 70 |
+
.cache/
|
| 71 |
+
.gradio/
|
| 72 |
+
flagged/
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DEPLOYMENT.md
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|
| 1 |
+
# RadioFlow Deployment Guide
|
| 2 |
+
|
| 3 |
+
## Deploying to HuggingFace Spaces
|
| 4 |
+
|
| 5 |
+
### Step 1: Create a HuggingFace Account
|
| 6 |
+
1. Go to [huggingface.co](https://huggingface.co)
|
| 7 |
+
2. Sign up or log in
|
| 8 |
+
3. Go to Settings → Access Tokens
|
| 9 |
+
4. Create a new token with write permissions
|
| 10 |
+
|
| 11 |
+
### Step 2: Create a New Space
|
| 12 |
+
1. Click on your profile → New Space
|
| 13 |
+
2. Configure:
|
| 14 |
+
- **Space name**: `radioflow`
|
| 15 |
+
- **License**: CC BY 4.0
|
| 16 |
+
- **SDK**: Gradio
|
| 17 |
+
- **Hardware**: CPU basic (or GPU if available)
|
| 18 |
+
- **Visibility**: Public
|
| 19 |
+
|
| 20 |
+
### Step 3: Upload Files
|
| 21 |
+
You can either:
|
| 22 |
+
|
| 23 |
+
#### Option A: Git Push
|
| 24 |
+
```bash
|
| 25 |
+
# Clone your space
|
| 26 |
+
git clone https://huggingface.co/spaces/YOUR_USERNAME/radioflow
|
| 27 |
+
cd radioflow
|
| 28 |
+
|
| 29 |
+
# Copy all project files
|
| 30 |
+
cp -r /path/to/project/* .
|
| 31 |
+
|
| 32 |
+
# Push
|
| 33 |
+
git add .
|
| 34 |
+
git commit -m "Initial RadioFlow deployment"
|
| 35 |
+
git push
|
| 36 |
+
```
|
| 37 |
+
|
| 38 |
+
#### Option B: Web Upload
|
| 39 |
+
1. Go to your Space's Files tab
|
| 40 |
+
2. Click "Upload files"
|
| 41 |
+
3. Upload these files:
|
| 42 |
+
- `app.py`
|
| 43 |
+
- `requirements.txt`
|
| 44 |
+
- `agents/` folder
|
| 45 |
+
- `orchestrator/` folder
|
| 46 |
+
- `utils/` folder
|
| 47 |
+
- `config.py`
|
| 48 |
+
|
| 49 |
+
### Step 4: Configure Environment
|
| 50 |
+
1. Go to Space Settings → Variables and secrets
|
| 51 |
+
2. Add your HuggingFace token:
|
| 52 |
+
- **Name**: `HF_TOKEN`
|
| 53 |
+
- **Value**: Your token (keep secret)
|
| 54 |
+
|
| 55 |
+
### Step 5: Wait for Build
|
| 56 |
+
- The Space will automatically build
|
| 57 |
+
- Check the Logs tab for any errors
|
| 58 |
+
- First build takes 5-10 minutes
|
| 59 |
+
|
| 60 |
+
### Step 6: Test Your Deployment
|
| 61 |
+
1. Visit `https://huggingface.co/spaces/YOUR_USERNAME/radioflow`
|
| 62 |
+
2. Upload a test chest X-ray
|
| 63 |
+
3. Verify the workflow completes
|
| 64 |
+
|
| 65 |
+
---
|
| 66 |
+
|
| 67 |
+
## Local Development
|
| 68 |
+
|
| 69 |
+
### Prerequisites
|
| 70 |
+
- Python 3.10+
|
| 71 |
+
- pip or conda
|
| 72 |
+
|
| 73 |
+
### Setup
|
| 74 |
+
```bash
|
| 75 |
+
# Create virtual environment
|
| 76 |
+
python -m venv venv
|
| 77 |
+
source venv/bin/activate # Windows: venv\Scripts\activate
|
| 78 |
+
|
| 79 |
+
# Install dependencies
|
| 80 |
+
pip install -r requirements.txt
|
| 81 |
+
|
| 82 |
+
# Login to HuggingFace (for model access)
|
| 83 |
+
huggingface-cli login
|
| 84 |
+
```
|
| 85 |
+
|
| 86 |
+
### Run Locally
|
| 87 |
+
```bash
|
| 88 |
+
# Run tests first
|
| 89 |
+
python test_radioflow.py
|
| 90 |
+
|
| 91 |
+
# Start the app
|
| 92 |
+
python app.py
|
| 93 |
+
```
|
| 94 |
+
|
| 95 |
+
The app will be available at `http://localhost:7860`
|
| 96 |
+
|
| 97 |
+
---
|
| 98 |
+
|
| 99 |
+
## Troubleshooting
|
| 100 |
+
|
| 101 |
+
### "Model not found" Error
|
| 102 |
+
- Ensure you've accepted the model license on HuggingFace
|
| 103 |
+
- Check that HF_TOKEN is set correctly
|
| 104 |
+
- For gated models, you may need to request access
|
| 105 |
+
|
| 106 |
+
### Out of Memory
|
| 107 |
+
- Enable `LOW_MEMORY_MODE` in `config.py`
|
| 108 |
+
- Use CPU-only mode
|
| 109 |
+
- Reduce `MAX_NEW_TOKENS`
|
| 110 |
+
|
| 111 |
+
### Slow Inference
|
| 112 |
+
- Demo mode uses simulated outputs for speed
|
| 113 |
+
- For real inference, GPU is recommended
|
| 114 |
+
- Consider model quantization
|
| 115 |
+
|
| 116 |
+
### Build Fails on Spaces
|
| 117 |
+
1. Check the build logs
|
| 118 |
+
2. Verify all files are uploaded
|
| 119 |
+
3. Ensure requirements.txt versions are compatible
|
| 120 |
+
4. Try removing version pins if issues persist
|
| 121 |
+
|
| 122 |
+
---
|
| 123 |
+
|
| 124 |
+
## File Structure for Deployment
|
| 125 |
+
|
| 126 |
+
```
|
| 127 |
+
radioflow/
|
| 128 |
+
├── app.py # Main Gradio app (required)
|
| 129 |
+
├── requirements.txt # Dependencies (required)
|
| 130 |
+
├── README.md # Description for Space
|
| 131 |
+
├── space.yaml # HuggingFace config
|
| 132 |
+
├── config.py # Configuration
|
| 133 |
+
├── agents/
|
| 134 |
+
│ ├── __init__.py
|
| 135 |
+
│ ├── base_agent.py
|
| 136 |
+
│ ├── cxr_analyzer.py
|
| 137 |
+
│ ├── finding_interpreter.py
|
| 138 |
+
│ ├── report_generator.py
|
| 139 |
+
│ └── priority_router.py
|
| 140 |
+
├── orchestrator/
|
| 141 |
+
│ ├── __init__.py
|
| 142 |
+
│ └── workflow.py
|
| 143 |
+
└── utils/
|
| 144 |
+
├── __init__.py
|
| 145 |
+
├── visualization.py
|
| 146 |
+
└── metrics.py
|
| 147 |
+
```
|
| 148 |
+
|
| 149 |
+
---
|
| 150 |
+
|
| 151 |
+
## Competition Submission Checklist
|
| 152 |
+
|
| 153 |
+
Before submitting to Kaggle:
|
| 154 |
+
|
| 155 |
+
- [ ] HuggingFace Space is live and working
|
| 156 |
+
- [ ] Public GitHub repository created
|
| 157 |
+
- [ ] 3-minute video recorded and uploaded
|
| 158 |
+
- [ ] Writeup completed (3 pages max)
|
| 159 |
+
- [ ] All links tested and accessible
|
| 160 |
+
- [ ] Submitted before deadline
|
| 161 |
+
|
| 162 |
+
### Required Links for Submission
|
| 163 |
+
1. **Video URL**: YouTube, Loom, or Google Drive
|
| 164 |
+
2. **Code Repository**: GitHub link
|
| 165 |
+
3. **Live Demo**: HuggingFace Spaces link
|
| 166 |
+
4. **Model (Bonus)**: HuggingFace model link (if fine-tuned)
|
VIDEO_SCRIPT.md
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|
|
|
|
|
| 1 |
+
# RadioFlow Demo Video Script
|
| 2 |
+
## 3-Minute Competition Video
|
| 3 |
+
|
| 4 |
+
---
|
| 5 |
+
|
| 6 |
+
## 📋 BEFORE RECORDING - What You Need
|
| 7 |
+
|
| 8 |
+
### Images to Use
|
| 9 |
+
Use the **sample chest X-rays** in your `sample_data/` folder:
|
| 10 |
+
- `real_cxr_1.png`
|
| 11 |
+
- `real_cxr_2.jpg`
|
| 12 |
+
- `real_cxr_bilateral.jpg`
|
| 13 |
+
- `real_cxr_opacity.png`
|
| 14 |
+
|
| 15 |
+
**⚠️ IMPORTANT**: Only use CHEST X-rays (lungs/heart visible).
|
| 16 |
+
Do NOT use shoulder, orthopedic, or other body part X-rays.
|
| 17 |
+
|
| 18 |
+
### Checklist
|
| 19 |
+
- [ ] Local app running at http://127.0.0.1:7860
|
| 20 |
+
- [ ] Sample X-ray images ready
|
| 21 |
+
- [ ] Screen recording software ready (OBS, Loom, QuickTime)
|
| 22 |
+
- [ ] Microphone tested
|
| 23 |
+
- [ ] Notifications turned off
|
| 24 |
+
|
| 25 |
+
---
|
| 26 |
+
|
| 27 |
+
## 🎬 THE SCRIPT
|
| 28 |
+
|
| 29 |
+
### INTRO (0:00 - 0:20)
|
| 30 |
+
|
| 31 |
+
**[Screen: Title slide or RadioFlow interface]**
|
| 32 |
+
|
| 33 |
+
> "Hi, I'm Samarpeet, and this is RadioFlow - a multi-agent AI system for radiology workflows, built for the MedGemma Impact Challenge."
|
| 34 |
+
|
| 35 |
+
**[Screen: Show the 4-agent diagram or interface]**
|
| 36 |
+
|
| 37 |
+
> "RadioFlow demonstrates how specialized AI agents can collaborate to assist radiologists - analyzing images, interpreting findings, generating reports, and assessing priority."
|
| 38 |
+
|
| 39 |
+
---
|
| 40 |
+
|
| 41 |
+
### THE PROBLEM (0:20 - 0:40)
|
| 42 |
+
|
| 43 |
+
**[Screen: Problem statistics or simple text slide]**
|
| 44 |
+
|
| 45 |
+
> "Radiologists face a critical challenge: over 700 million imaging studies per year in the US alone, with burnout rates exceeding 30%."
|
| 46 |
+
|
| 47 |
+
> "The manual workflow of analyzing images, writing reports, and prioritizing cases creates bottlenecks and delays."
|
| 48 |
+
|
| 49 |
+
> "RadioFlow addresses this with a multi-agent AI approach."
|
| 50 |
+
|
| 51 |
+
---
|
| 52 |
+
|
| 53 |
+
### ARCHITECTURE (0:40 - 1:10)
|
| 54 |
+
|
| 55 |
+
**[Screen: Show the RadioFlow interface or architecture diagram]**
|
| 56 |
+
|
| 57 |
+
> "RadioFlow uses a 4-agent orchestrated pipeline."
|
| 58 |
+
|
| 59 |
+
**[Point to or highlight each section]**
|
| 60 |
+
|
| 61 |
+
> "Agent 1, the CXR Analyzer, processes the chest X-ray image."
|
| 62 |
+
|
| 63 |
+
> "Agent 2, the Finding Interpreter, uses MedGemma to translate findings into clinical language."
|
| 64 |
+
|
| 65 |
+
> "Agent 3, the Report Generator, creates a structured radiology report using MedGemma."
|
| 66 |
+
|
| 67 |
+
> "Agent 4, the Priority Router, assesses urgency and determines case routing - also powered by MedGemma."
|
| 68 |
+
|
| 69 |
+
> "Each agent has a specific job and hands off to the next - this is agentic workflow design."
|
| 70 |
+
|
| 71 |
+
---
|
| 72 |
+
|
| 73 |
+
### LIVE DEMO (1:10 - 2:10)
|
| 74 |
+
|
| 75 |
+
**[Screen: RadioFlow Gradio interface - http://127.0.0.1:7860]**
|
| 76 |
+
|
| 77 |
+
> "Let me show you RadioFlow in action."
|
| 78 |
+
|
| 79 |
+
**[Upload one of the sample chest X-rays]**
|
| 80 |
+
|
| 81 |
+
> "I'll upload a chest X-ray. You can also add clinical context like patient history."
|
| 82 |
+
|
| 83 |
+
**[Type in Clinical History box: "65-year-old with cough and fever"]**
|
| 84 |
+
|
| 85 |
+
**[Click 'Analyze X-Ray' button]**
|
| 86 |
+
|
| 87 |
+
> "Now watch as the pipeline processes through each agent..."
|
| 88 |
+
|
| 89 |
+
**[Wait for processing - about 15-20 seconds with real MedGemma]**
|
| 90 |
+
|
| 91 |
+
> "Stage 1 analyzes the image... Stage 2 interprets findings with MedGemma... Stage 3 generates the report... Stage 4 assesses priority..."
|
| 92 |
+
|
| 93 |
+
**[Show the results when ready]**
|
| 94 |
+
|
| 95 |
+
> "In about 15 seconds, RadioFlow has produced a complete analysis."
|
| 96 |
+
|
| 97 |
+
**[Click on Report tab]**
|
| 98 |
+
|
| 99 |
+
> "Here's the structured radiology report - generated by MedGemma with findings, impression, and recommendations."
|
| 100 |
+
|
| 101 |
+
**[Show Priority section]**
|
| 102 |
+
|
| 103 |
+
> "The system assessed this as [READ THE PRIORITY LEVEL] priority."
|
| 104 |
+
|
| 105 |
+
**[Optionally show Visualizations tab]**
|
| 106 |
+
|
| 107 |
+
> "The visualization shows the agent pipeline and processing metrics."
|
| 108 |
+
|
| 109 |
+
---
|
| 110 |
+
|
| 111 |
+
### WHY THIS MATTERS (2:10 - 2:40)
|
| 112 |
+
|
| 113 |
+
**[Screen: Back to main interface or impact slide]**
|
| 114 |
+
|
| 115 |
+
> "What makes RadioFlow special isn't just the output - it's the architecture."
|
| 116 |
+
|
| 117 |
+
> "Four specialized agents, each doing one thing well, with clear handoffs between them."
|
| 118 |
+
|
| 119 |
+
> "This modular design means each agent can be improved independently, debugged clearly, and scaled as needed."
|
| 120 |
+
|
| 121 |
+
> "MedGemma powers the clinical intelligence - understanding medical terminology and generating professional reports."
|
| 122 |
+
|
| 123 |
+
> "For production deployment, this architecture could integrate medical imaging AI like CXR Foundation for the image analysis stage."
|
| 124 |
+
|
| 125 |
+
---
|
| 126 |
+
|
| 127 |
+
### CLOSING (2:40 - 3:00)
|
| 128 |
+
|
| 129 |
+
**[Screen: Summary or final slide]**
|
| 130 |
+
|
| 131 |
+
> "RadioFlow: a multi-agent AI system demonstrating how specialized agents can collaborate for radiology workflow automation."
|
| 132 |
+
|
| 133 |
+
> "Built with Google's MedGemma, targeting both the Main Track and the Agentic Workflow Prize."
|
| 134 |
+
|
| 135 |
+
> "Thank you for watching!"
|
| 136 |
+
|
| 137 |
+
**[Screen: Your name and links]**
|
| 138 |
+
|
| 139 |
+
---
|
| 140 |
+
|
| 141 |
+
## 🎥 Recording Tips
|
| 142 |
+
|
| 143 |
+
1. **Speak slowly and clearly** - You have 3 minutes, no need to rush
|
| 144 |
+
2. **Practice once or twice** before recording
|
| 145 |
+
3. **Wait for processing** - The ~15 second MedGemma processing is fine to show
|
| 146 |
+
4. **If something goes wrong** - Just pause and retry that section
|
| 147 |
+
5. **Aim for 2:45-2:55** - Leave buffer under the 3-minute limit
|
| 148 |
+
|
| 149 |
+
## 🛠️ Recording Tools
|
| 150 |
+
|
| 151 |
+
- **Mac**: QuickTime Player (built-in) or OBS Studio (free)
|
| 152 |
+
- **Simple option**: Loom (easy screen + audio recording)
|
| 153 |
+
- **Editing**: iMovie (Mac) or DaVinci Resolve (free)
|
| 154 |
+
|
| 155 |
+
## 📁 Sample Images Location
|
| 156 |
+
|
| 157 |
+
Your sample X-rays are in:
|
| 158 |
+
```
|
| 159 |
+
/Users/samarpeetgarad/Desktop/competitions/The MedGemma Impact Challenge/sample_data/
|
| 160 |
+
```
|
| 161 |
+
|
| 162 |
+
Use any of these for the demo:
|
| 163 |
+
- `real_cxr_1.png` - Good for showing opacity detection
|
| 164 |
+
- `real_cxr_2.jpg` - Clear chest X-ray
|
| 165 |
+
- `real_cxr_bilateral.jpg` - Shows bilateral findings
|
| 166 |
+
- `real_cxr_opacity.png` - Shows opacity findings
|
| 167 |
+
|
| 168 |
+
---
|
| 169 |
+
|
| 170 |
+
## ✅ Final Checklist
|
| 171 |
+
|
| 172 |
+
- [ ] Script practiced 2-3 times
|
| 173 |
+
- [ ] Local app running and tested
|
| 174 |
+
- [ ] Sample image ready to upload
|
| 175 |
+
- [ ] Recording software ready
|
| 176 |
+
- [ ] Microphone working
|
| 177 |
+
- [ ] Notifications off
|
| 178 |
+
- [ ] Video under 3 minutes
|
| 179 |
+
- [ ] Uploaded to YouTube/Drive and link added to submission
|
WRITEUP.md
ADDED
|
@@ -0,0 +1,232 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
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|
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|
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|
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|
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|
|
|
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|
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|
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|
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|
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|
|
|
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|
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|
|
|
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|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
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|
|
|
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|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
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|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
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|
|
|
|
|
|
|
|
| 1 |
+
# RadioFlow: Multi-Agent Radiology Workflow System
|
| 2 |
+
|
| 3 |
+
**MedGemma Impact Challenge Submission**
|
| 4 |
+
|
| 5 |
+
---
|
| 6 |
+
|
| 7 |
+
## Project Name
|
| 8 |
+
**RadioFlow** - Multi-Agent AI Workflow for Radiology Assistance
|
| 9 |
+
|
| 10 |
+
## Team
|
| 11 |
+
- **Samarpeet Garad** - ML Engineer & Project Lead
|
| 12 |
+
|
| 13 |
+
---
|
| 14 |
+
|
| 15 |
+
## Executive Summary
|
| 16 |
+
|
| 17 |
+
RadioFlow is a **proof-of-concept multi-agent system** demonstrating how AI could transform radiology workflows. It showcases a 4-agent orchestrated pipeline where specialized AI agents collaborate to analyze chest X-rays, interpret findings, generate reports, and assess priority.
|
| 18 |
+
|
| 19 |
+
**Key Innovation**: The agentic workflow architecture with clear handoffs between specialized agents - a design pattern that enables modular, observable, and scalable medical AI systems.
|
| 20 |
+
|
| 21 |
+
---
|
| 22 |
+
|
| 23 |
+
## Problem Statement
|
| 24 |
+
|
| 25 |
+
### The Challenge: Radiologist Burnout & Workflow Inefficiency
|
| 26 |
+
|
| 27 |
+
Radiology departments worldwide face a critical crisis:
|
| 28 |
+
|
| 29 |
+
- **700+ million** imaging studies performed annually in the US alone
|
| 30 |
+
- **30%+ burnout rate** among radiologists
|
| 31 |
+
- **Average 5-10 minutes** per chest X-ray for preliminary reading
|
| 32 |
+
- **Limited access** to radiologist expertise in underserved regions
|
| 33 |
+
|
| 34 |
+
Current clinical workflows require radiologists to manually:
|
| 35 |
+
1. Analyze each image for abnormalities
|
| 36 |
+
2. Interpret findings in clinical context
|
| 37 |
+
3. Generate structured reports
|
| 38 |
+
4. Determine case urgency and routing
|
| 39 |
+
|
| 40 |
+
This sequential, manual process creates bottlenecks, delays critical findings communication, and contributes to physician burnout.
|
| 41 |
+
|
| 42 |
+
### Why Multi-Agent AI is the Right Approach
|
| 43 |
+
|
| 44 |
+
A multi-agent system offers advantages over monolithic AI:
|
| 45 |
+
- **Specialization**: Each agent focuses on one task, doing it well
|
| 46 |
+
- **Observability**: Clear handoffs enable debugging and explainability
|
| 47 |
+
- **Modularity**: Agents can be upgraded independently
|
| 48 |
+
- **Reliability**: Graceful degradation if one component fails
|
| 49 |
+
|
| 50 |
+
---
|
| 51 |
+
|
| 52 |
+
## Solution: Agentic Workflow Architecture
|
| 53 |
+
|
| 54 |
+
### The 4-Agent Pipeline
|
| 55 |
+
|
| 56 |
+
RadioFlow demonstrates a **production-ready architecture** for AI-assisted radiology:
|
| 57 |
+
|
| 58 |
+
```
|
| 59 |
+
┌─────────────────────────────────────────────────────────────┐
|
| 60 |
+
│ RADIOFLOW AGENT ORCHESTRATOR │
|
| 61 |
+
├─────────────────────────────────────────────────────────────┤
|
| 62 |
+
│ │
|
| 63 |
+
│ Agent 1: CXR ANALYZER │
|
| 64 |
+
│ └─ Processes chest X-ray images │
|
| 65 |
+
│ Extracts visual features and patterns │
|
| 66 |
+
│ ↓ │
|
| 67 |
+
│ Agent 2: FINDING INTERPRETER [MedGemma] │
|
| 68 |
+
│ └─ Interprets findings into clinical language │
|
| 69 |
+
│ Generates differential diagnoses │
|
| 70 |
+
│ ↓ │
|
| 71 |
+
│ Agent 3: REPORT GENERATOR [MedGemma] │
|
| 72 |
+
│ └─ Creates structured radiology reports │
|
| 73 |
+
│ Follows standard clinical format │
|
| 74 |
+
│ ↓ │
|
| 75 |
+
│ Agent 4: PRIORITY ROUTER [MedGemma] │
|
| 76 |
+
│ └─ Assesses urgency and routing │
|
| 77 |
+
│ Flags critical findings for communication │
|
| 78 |
+
│ │
|
| 79 |
+
└─────────────────────────────────────────────────────────────┘
|
| 80 |
+
```
|
| 81 |
+
|
| 82 |
+
### What Makes This Agentic
|
| 83 |
+
|
| 84 |
+
Each agent in RadioFlow:
|
| 85 |
+
- **Has a specific role**: One task, clear responsibility
|
| 86 |
+
- **Produces structured output**: JSON-formatted results for downstream agents
|
| 87 |
+
- **Maintains context**: Passes relevant information through the pipeline
|
| 88 |
+
- **Is independently testable**: Can be validated and improved in isolation
|
| 89 |
+
- **Hands off explicitly**: Clear agent-to-agent transitions
|
| 90 |
+
|
| 91 |
+
This is the essence of agentic design - autonomous components collaborating toward a goal.
|
| 92 |
+
|
| 93 |
+
---
|
| 94 |
+
|
| 95 |
+
## Technical Implementation
|
| 96 |
+
|
| 97 |
+
### MedGemma Integration
|
| 98 |
+
|
| 99 |
+
MedGemma powers three agents in the pipeline:
|
| 100 |
+
|
| 101 |
+
**Finding Interpreter (Agent 2)**
|
| 102 |
+
```python
|
| 103 |
+
# MedGemma interprets visual findings
|
| 104 |
+
prompt = f"As a radiologist, interpret these findings: {findings}"
|
| 105 |
+
interpretation = medgemma.generate(prompt)
|
| 106 |
+
```
|
| 107 |
+
|
| 108 |
+
**Report Generator (Agent 3)**
|
| 109 |
+
```python
|
| 110 |
+
# MedGemma generates structured reports
|
| 111 |
+
prompt = f"Generate a radiology report for: {interpreted_findings}"
|
| 112 |
+
report = medgemma.generate(prompt)
|
| 113 |
+
```
|
| 114 |
+
|
| 115 |
+
**Priority Router (Agent 4)**
|
| 116 |
+
```python
|
| 117 |
+
# MedGemma assesses clinical priority
|
| 118 |
+
prompt = f"Assess the priority of this case: {report}"
|
| 119 |
+
priority = medgemma.generate(prompt)
|
| 120 |
+
```
|
| 121 |
+
|
| 122 |
+
### Technology Stack
|
| 123 |
+
|
| 124 |
+
| Component | Technology |
|
| 125 |
+
|-----------|------------|
|
| 126 |
+
| Frontend | Gradio |
|
| 127 |
+
| Orchestration | Custom Python Pipeline |
|
| 128 |
+
| Language Model | MedGemma 4B-IT (via MLX/Transformers) |
|
| 129 |
+
| Visualization | Plotly |
|
| 130 |
+
| Deployment | Local (MLX) / HuggingFace Spaces |
|
| 131 |
+
|
| 132 |
+
### Local Development with MLX
|
| 133 |
+
|
| 134 |
+
RadioFlow runs **real MedGemma inference** locally on Apple Silicon:
|
| 135 |
+
```python
|
| 136 |
+
from mlx_lm import load, generate
|
| 137 |
+
model, tokenizer = load("mlx-community/medgemma-4b-it-4bit")
|
| 138 |
+
response = generate(model, tokenizer, prompt=clinical_prompt)
|
| 139 |
+
```
|
| 140 |
+
|
| 141 |
+
---
|
| 142 |
+
|
| 143 |
+
## Current Scope & Future Vision
|
| 144 |
+
|
| 145 |
+
### What RadioFlow Demonstrates Today
|
| 146 |
+
|
| 147 |
+
| Component | Current Implementation |
|
| 148 |
+
|-----------|----------------------|
|
| 149 |
+
| Image Analysis | Pattern-based feature extraction |
|
| 150 |
+
| Clinical Interpretation | Real MedGemma inference |
|
| 151 |
+
| Report Generation | Real MedGemma inference |
|
| 152 |
+
| Priority Assessment | Real MedGemma inference |
|
| 153 |
+
|
| 154 |
+
### Production Roadmap
|
| 155 |
+
|
| 156 |
+
For clinical deployment, RadioFlow would integrate:
|
| 157 |
+
|
| 158 |
+
1. **CXR Foundation Model**: Google's medical imaging AI for accurate finding detection
|
| 159 |
+
2. **Validation Studies**: Clinical testing with radiologist oversight
|
| 160 |
+
3. **EHR Integration**: FHIR-compliant APIs for hospital systems
|
| 161 |
+
4. **Regulatory Compliance**: FDA clearance pathway
|
| 162 |
+
|
| 163 |
+
---
|
| 164 |
+
|
| 165 |
+
## Impact Potential
|
| 166 |
+
|
| 167 |
+
### If Deployed at Scale
|
| 168 |
+
|
| 169 |
+
| Metric | Conservative Estimate |
|
| 170 |
+
|--------|----------------------|
|
| 171 |
+
| Time saved per study | 2-4 minutes |
|
| 172 |
+
| Studies per radiologist/day | 50-100 |
|
| 173 |
+
| Daily time savings | 1.5-6 hours |
|
| 174 |
+
| Reduced documentation burden | 40-60% |
|
| 175 |
+
|
| 176 |
+
### Key Benefits
|
| 177 |
+
|
| 178 |
+
1. **Radiologist Augmentation**: Preliminary analysis reduces cognitive load
|
| 179 |
+
2. **Consistent Reporting**: Standardized format for every case
|
| 180 |
+
3. **Priority Triage**: Critical findings flagged automatically
|
| 181 |
+
4. **Scalability**: Edge-deployable for underserved regions
|
| 182 |
+
|
| 183 |
+
---
|
| 184 |
+
|
| 185 |
+
## Competition Alignment
|
| 186 |
+
|
| 187 |
+
### Main Track: Effective Use of HAI-DEF Models
|
| 188 |
+
|
| 189 |
+
- MedGemma powers 3 of 4 agents
|
| 190 |
+
- Demonstrates medical text understanding and generation
|
| 191 |
+
- Shows practical application in radiology workflow
|
| 192 |
+
|
| 193 |
+
### Agentic Workflow Prize
|
| 194 |
+
|
| 195 |
+
- **4 specialized agents** with clear roles
|
| 196 |
+
- **Explicit handoffs** between agents
|
| 197 |
+
- **Observable pipeline** with metrics at each stage
|
| 198 |
+
- **Modular design** enabling independent upgrades
|
| 199 |
+
|
| 200 |
+
### Human-Centered Design
|
| 201 |
+
|
| 202 |
+
- Augments radiologists, doesn't replace them
|
| 203 |
+
- Explainable results with confidence scores
|
| 204 |
+
- Clear workflow visualization for trust
|
| 205 |
+
|
| 206 |
+
---
|
| 207 |
+
|
| 208 |
+
## Honest Limitations
|
| 209 |
+
|
| 210 |
+
1. **Image Analysis**: Current demo uses pattern-based extraction, not production imaging AI
|
| 211 |
+
2. **Validation**: Not clinically validated - requires professional oversight
|
| 212 |
+
3. **Scope**: Designed for chest X-rays; orthopedic/other imaging not supported
|
| 213 |
+
4. **Regulatory**: Not FDA-cleared; demonstration purposes only
|
| 214 |
+
|
| 215 |
+
---
|
| 216 |
+
|
| 217 |
+
## Resources
|
| 218 |
+
|
| 219 |
+
- **Live Demo**: http://127.0.0.1:7860 (local)
|
| 220 |
+
- **Kaggle Notebook**: Real MedGemma inference on GPU
|
| 221 |
+
- **Video Demo**: 3-minute walkthrough
|
| 222 |
+
|
| 223 |
+
---
|
| 224 |
+
|
| 225 |
+
## Disclaimer
|
| 226 |
+
|
| 227 |
+
RadioFlow is a **demonstration system** for the MedGemma Impact Challenge. It is **not intended for clinical use** and requires radiologist verification. This system demonstrates workflow architecture and MedGemma integration, not production-ready diagnostics.
|
| 228 |
+
|
| 229 |
+
---
|
| 230 |
+
|
| 231 |
+
*Built with Google's MedGemma from Health AI Developer Foundations (HAI-DEF)*
|
| 232 |
+
*MedGemma Impact Challenge 2026*
|
app.py
CHANGED
|
@@ -15,22 +15,8 @@ import time
|
|
| 15 |
from typing import Optional, Tuple, List, Dict
|
| 16 |
import json
|
| 17 |
|
| 18 |
-
#
|
| 19 |
-
|
| 20 |
-
import spaces
|
| 21 |
-
SPACES_AVAILABLE = True
|
| 22 |
-
except ImportError:
|
| 23 |
-
SPACES_AVAILABLE = False
|
| 24 |
-
# Create a dummy decorator that accepts any arguments
|
| 25 |
-
class spaces:
|
| 26 |
-
@staticmethod
|
| 27 |
-
def GPU(*args, **kwargs):
|
| 28 |
-
def decorator(func):
|
| 29 |
-
return func
|
| 30 |
-
# Handle both @spaces.GPU and @spaces.GPU(duration=120)
|
| 31 |
-
if len(args) == 1 and callable(args[0]):
|
| 32 |
-
return args[0]
|
| 33 |
-
return decorator
|
| 34 |
|
| 35 |
# Import our modules
|
| 36 |
from orchestrator import RadioFlowOrchestrator, WorkflowResult, create_orchestrator
|
|
@@ -86,7 +72,6 @@ def initialize_system():
|
|
| 86 |
return f"✅ RadioFlow System Initialized ({engine_status})"
|
| 87 |
|
| 88 |
|
| 89 |
-
@spaces.GPU(duration=120) # Request GPU for up to 2 minutes per inference
|
| 90 |
def process_xray(
|
| 91 |
image: Optional[Image.Image],
|
| 92 |
clinical_history: str,
|
|
|
|
| 15 |
from typing import Optional, Tuple, List, Dict
|
| 16 |
import json
|
| 17 |
|
| 18 |
+
# HuggingFace Spaces detection
|
| 19 |
+
SPACES_AVAILABLE = os.environ.get("SPACE_ID") is not None
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
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|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 20 |
|
| 21 |
# Import our modules
|
| 22 |
from orchestrator import RadioFlowOrchestrator, WorkflowResult, create_orchestrator
|
|
|
|
| 72 |
return f"✅ RadioFlow System Initialized ({engine_status})"
|
| 73 |
|
| 74 |
|
|
|
|
| 75 |
def process_xray(
|
| 76 |
image: Optional[Image.Image],
|
| 77 |
clinical_history: str,
|
kaggle_notebook.py
ADDED
|
@@ -0,0 +1,1005 @@
|
|
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|
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|
| 1 |
+
"""
|
| 2 |
+
RadioFlow: AI-Powered Radiology Workflow Agent
|
| 3 |
+
Kaggle Notebook with REAL MedGemma Model
|
| 4 |
+
MedGemma Impact Challenge Submission
|
| 5 |
+
"""
|
| 6 |
+
|
| 7 |
+
# %% [markdown]
|
| 8 |
+
# # 🩻 RadioFlow: AI-Powered Radiology Workflow Agent
|
| 9 |
+
# ## MedGemma Impact Challenge Submission
|
| 10 |
+
#
|
| 11 |
+
# **Author:** Samarpeet Garad
|
| 12 |
+
# **Date:** February 2026
|
| 13 |
+
#
|
| 14 |
+
# ---
|
| 15 |
+
#
|
| 16 |
+
# ## Executive Summary
|
| 17 |
+
#
|
| 18 |
+
# RadioFlow is a **real AI-powered** multi-agent system that analyzes chest X-rays using
|
| 19 |
+
# Google's **MedGemma** model. This notebook runs with actual model inference on Kaggle's
|
| 20 |
+
# free GPU, demonstrating production-ready medical AI.
|
| 21 |
+
#
|
| 22 |
+
# **Key Features:**
|
| 23 |
+
# - 🤖 Real MedGemma-4B model inference (not simulated!)
|
| 24 |
+
# - 🔬 4-agent orchestrated pipeline
|
| 25 |
+
# - 📋 Generates structured radiology reports
|
| 26 |
+
# - 🚦 Automatic priority assessment and routing
|
| 27 |
+
|
| 28 |
+
# %% [markdown]
|
| 29 |
+
# ## 1. Setup and GPU Check
|
| 30 |
+
|
| 31 |
+
# %%
|
| 32 |
+
import os
|
| 33 |
+
import sys
|
| 34 |
+
import time
|
| 35 |
+
import json
|
| 36 |
+
import warnings
|
| 37 |
+
|
| 38 |
+
warnings.filterwarnings("ignore")
|
| 39 |
+
|
| 40 |
+
# Check GPU availability
|
| 41 |
+
import torch
|
| 42 |
+
|
| 43 |
+
print(f"PyTorch version: {torch.__version__}")
|
| 44 |
+
print(f"CUDA available: {torch.cuda.is_available()}")
|
| 45 |
+
if torch.cuda.is_available():
|
| 46 |
+
print(f"GPU: {torch.cuda.get_device_name(0)}")
|
| 47 |
+
print(
|
| 48 |
+
f"GPU Memory: {torch.cuda.get_device_properties(0).total_memory / 1e9:.1f} GB"
|
| 49 |
+
)
|
| 50 |
+
else:
|
| 51 |
+
print("⚠️ No GPU detected - model will run slower on CPU")
|
| 52 |
+
|
| 53 |
+
# %%
|
| 54 |
+
# Install required packages
|
| 55 |
+
print("📦 Installing required packages...")
|
| 56 |
+
import subprocess
|
| 57 |
+
|
| 58 |
+
subprocess.run(
|
| 59 |
+
["pip", "install", "-q", "bitsandbytes", "accelerate", "sentencepiece"], check=True
|
| 60 |
+
)
|
| 61 |
+
print("✅ Packages installed!")
|
| 62 |
+
|
| 63 |
+
# %%
|
| 64 |
+
import numpy as np
|
| 65 |
+
import pandas as pd
|
| 66 |
+
from datetime import datetime
|
| 67 |
+
from dataclasses import dataclass, field
|
| 68 |
+
from typing import Dict, List, Optional, Any, Tuple
|
| 69 |
+
from PIL import Image, ImageDraw
|
| 70 |
+
import matplotlib.pyplot as plt
|
| 71 |
+
|
| 72 |
+
# Hugging Face
|
| 73 |
+
from transformers import AutoTokenizer, AutoModelForCausalLM, BitsAndBytesConfig
|
| 74 |
+
from huggingface_hub import login
|
| 75 |
+
|
| 76 |
+
# Display
|
| 77 |
+
from IPython.display import HTML, display, Markdown, clear_output
|
| 78 |
+
import plotly.graph_objects as go
|
| 79 |
+
|
| 80 |
+
print("✅ Dependencies loaded successfully")
|
| 81 |
+
|
| 82 |
+
# %% [markdown]
|
| 83 |
+
# ## 2. Authenticate with Hugging Face
|
| 84 |
+
#
|
| 85 |
+
# To use MedGemma, you need to:
|
| 86 |
+
# 1. Accept the license at https://huggingface.co/google/medgemma-4b-it
|
| 87 |
+
# 2. Add your HF token as a Kaggle secret named "HF_TOKEN"
|
| 88 |
+
|
| 89 |
+
# %%
|
| 90 |
+
# Get HuggingFace token from Kaggle secrets
|
| 91 |
+
try:
|
| 92 |
+
from kaggle_secrets import UserSecretsClient
|
| 93 |
+
|
| 94 |
+
secrets = UserSecretsClient()
|
| 95 |
+
HF_TOKEN = secrets.get_secret("HF_TOKEN")
|
| 96 |
+
login(token=HF_TOKEN)
|
| 97 |
+
print("✅ Authenticated with Hugging Face")
|
| 98 |
+
except Exception as e:
|
| 99 |
+
print(f"⚠️ Could not get HF token from Kaggle secrets: {e}")
|
| 100 |
+
print("Please add your HF_TOKEN as a Kaggle secret")
|
| 101 |
+
HF_TOKEN = None
|
| 102 |
+
|
| 103 |
+
# %% [markdown]
|
| 104 |
+
# ## 3. Load Real MedGemma Model
|
| 105 |
+
|
| 106 |
+
# %%
|
| 107 |
+
MODEL_NAME = "google/medgemma-4b-it"
|
| 108 |
+
|
| 109 |
+
# Configure 4-bit quantization for efficient memory usage
|
| 110 |
+
quantization_config = BitsAndBytesConfig(
|
| 111 |
+
load_in_4bit=True,
|
| 112 |
+
bnb_4bit_compute_dtype=torch.float16,
|
| 113 |
+
bnb_4bit_use_double_quant=True,
|
| 114 |
+
bnb_4bit_quant_type="nf4",
|
| 115 |
+
)
|
| 116 |
+
|
| 117 |
+
print(f"🔄 Loading {MODEL_NAME}...")
|
| 118 |
+
print(" This may take 1-2 minutes on first run...")
|
| 119 |
+
|
| 120 |
+
try:
|
| 121 |
+
tokenizer = AutoTokenizer.from_pretrained(MODEL_NAME, trust_remote_code=True)
|
| 122 |
+
|
| 123 |
+
model = AutoModelForCausalLM.from_pretrained(
|
| 124 |
+
MODEL_NAME,
|
| 125 |
+
quantization_config=quantization_config,
|
| 126 |
+
device_map="auto",
|
| 127 |
+
trust_remote_code=True,
|
| 128 |
+
torch_dtype=torch.float16,
|
| 129 |
+
)
|
| 130 |
+
model.eval()
|
| 131 |
+
|
| 132 |
+
MODEL_LOADED = True
|
| 133 |
+
print(f"✅ MedGemma loaded successfully!")
|
| 134 |
+
print(f" Memory used: {torch.cuda.memory_allocated() / 1e9:.2f} GB")
|
| 135 |
+
|
| 136 |
+
except Exception as e:
|
| 137 |
+
print(f"❌ Failed to load model: {e}")
|
| 138 |
+
print(" Falling back to demo mode...")
|
| 139 |
+
MODEL_LOADED = False
|
| 140 |
+
model = None
|
| 141 |
+
tokenizer = None
|
| 142 |
+
|
| 143 |
+
|
| 144 |
+
# %%
|
| 145 |
+
def generate_medgemma_response(prompt: str, max_tokens: int = 512) -> str:
|
| 146 |
+
"""Generate response using real MedGemma model."""
|
| 147 |
+
if not MODEL_LOADED:
|
| 148 |
+
return "[Demo mode - model not loaded]"
|
| 149 |
+
|
| 150 |
+
messages = [{"role": "user", "content": prompt}]
|
| 151 |
+
|
| 152 |
+
# Tokenize with proper attention mask
|
| 153 |
+
inputs = tokenizer.apply_chat_template(
|
| 154 |
+
messages, return_tensors="pt", add_generation_prompt=True
|
| 155 |
+
)
|
| 156 |
+
|
| 157 |
+
# Create attention mask (1 for all tokens since no padding)
|
| 158 |
+
attention_mask = torch.ones_like(inputs)
|
| 159 |
+
|
| 160 |
+
# Move to device
|
| 161 |
+
inputs = inputs.to(model.device)
|
| 162 |
+
attention_mask = attention_mask.to(model.device)
|
| 163 |
+
|
| 164 |
+
with torch.no_grad():
|
| 165 |
+
outputs = model.generate(
|
| 166 |
+
inputs,
|
| 167 |
+
attention_mask=attention_mask,
|
| 168 |
+
max_new_tokens=max_tokens,
|
| 169 |
+
do_sample=False, # Use greedy decoding to avoid numerical issues
|
| 170 |
+
pad_token_id=tokenizer.eos_token_id,
|
| 171 |
+
)
|
| 172 |
+
|
| 173 |
+
response = tokenizer.decode(outputs[0][inputs.shape[1] :], skip_special_tokens=True)
|
| 174 |
+
return response.strip()
|
| 175 |
+
|
| 176 |
+
|
| 177 |
+
# Test the model
|
| 178 |
+
if MODEL_LOADED:
|
| 179 |
+
print("\n🧪 Testing MedGemma...")
|
| 180 |
+
test_response = generate_medgemma_response(
|
| 181 |
+
"What are the key findings to look for in a chest X-ray? List 3 briefly.",
|
| 182 |
+
max_tokens=100,
|
| 183 |
+
)
|
| 184 |
+
print(f"Response: {test_response[:200]}...")
|
| 185 |
+
|
| 186 |
+
# %% [markdown]
|
| 187 |
+
# ## 4. Agent Architecture
|
| 188 |
+
#
|
| 189 |
+
# RadioFlow uses a 4-agent pipeline, each powered by MedGemma:
|
| 190 |
+
#
|
| 191 |
+
# ```
|
| 192 |
+
# ┌────────────────┐ ┌────────────────┐ ┌────────────────┐ ┌────────────────┐
|
| 193 |
+
# │ CXR Analyzer │───▶│ Finding │───▶│ Report │───▶│ Priority │
|
| 194 |
+
# │ (Image Analysis│ │ Interpreter │ │ Generator │ │ Router │
|
| 195 |
+
# │ + MedGemma) │ │ (MedGemma) │ │ (MedGemma) │ │ (MedGemma) │
|
| 196 |
+
# └────────────────┘ └────────────────┘ └────────────────┘ └────────────────┘
|
| 197 |
+
# ```
|
| 198 |
+
|
| 199 |
+
|
| 200 |
+
# %%
|
| 201 |
+
@dataclass
|
| 202 |
+
class AgentResult:
|
| 203 |
+
"""Standardized result from any agent"""
|
| 204 |
+
|
| 205 |
+
agent_name: str
|
| 206 |
+
status: str
|
| 207 |
+
data: Dict[str, Any]
|
| 208 |
+
processing_time_ms: float
|
| 209 |
+
timestamp: str = field(default_factory=lambda: datetime.now().isoformat())
|
| 210 |
+
|
| 211 |
+
|
| 212 |
+
class BaseAgent:
|
| 213 |
+
"""Base class for all RadioFlow agents"""
|
| 214 |
+
|
| 215 |
+
def __init__(self, name: str, model_name: str):
|
| 216 |
+
self.name = name
|
| 217 |
+
self.model_name = model_name
|
| 218 |
+
|
| 219 |
+
def __call__(self, input_data: Any, context: Optional[Dict] = None) -> AgentResult:
|
| 220 |
+
start = time.time()
|
| 221 |
+
result = self.process(input_data, context)
|
| 222 |
+
result.processing_time_ms = (time.time() - start) * 1000
|
| 223 |
+
return result
|
| 224 |
+
|
| 225 |
+
def process(self, input_data: Any, context: Optional[Dict] = None) -> AgentResult:
|
| 226 |
+
raise NotImplementedError
|
| 227 |
+
|
| 228 |
+
|
| 229 |
+
print("✅ Base agent class defined")
|
| 230 |
+
|
| 231 |
+
# %% [markdown]
|
| 232 |
+
# ## 5. Agent Implementations with Real MedGemma
|
| 233 |
+
|
| 234 |
+
|
| 235 |
+
# %%
|
| 236 |
+
class CXRAnalyzerAgent(BaseAgent):
|
| 237 |
+
"""
|
| 238 |
+
Agent 1: Image Analyzer
|
| 239 |
+
Analyzes chest X-ray images using computer vision + MedGemma.
|
| 240 |
+
"""
|
| 241 |
+
|
| 242 |
+
def __init__(self):
|
| 243 |
+
super().__init__("CXR Analyzer", "MedGemma + Image Analysis")
|
| 244 |
+
self.regions = [
|
| 245 |
+
"right_upper_lung",
|
| 246 |
+
"right_middle_lung",
|
| 247 |
+
"right_lower_lung",
|
| 248 |
+
"left_upper_lung",
|
| 249 |
+
"left_lower_lung",
|
| 250 |
+
"cardiac_silhouette",
|
| 251 |
+
"mediastinum",
|
| 252 |
+
"costophrenic_angles",
|
| 253 |
+
]
|
| 254 |
+
|
| 255 |
+
def process(
|
| 256 |
+
self, image: Image.Image, context: Optional[Dict] = None
|
| 257 |
+
) -> AgentResult:
|
| 258 |
+
# Analyze image characteristics
|
| 259 |
+
img_array = np.array(image.convert("L")) # Grayscale
|
| 260 |
+
|
| 261 |
+
# Calculate regional statistics
|
| 262 |
+
h, w = img_array.shape
|
| 263 |
+
regions_stats = {
|
| 264 |
+
"right_lung": img_array[:, w // 2 :].mean(),
|
| 265 |
+
"left_lung": img_array[:, : w // 2].mean(),
|
| 266 |
+
"upper": img_array[: h // 2, :].mean(),
|
| 267 |
+
"lower": img_array[h // 2 :, :].mean(),
|
| 268 |
+
"cardiac": img_array[h // 3 : 2 * h // 3, w // 3 : 2 * w // 3].mean(),
|
| 269 |
+
}
|
| 270 |
+
|
| 271 |
+
overall_brightness = img_array.mean()
|
| 272 |
+
contrast = img_array.std()
|
| 273 |
+
asymmetry = abs(regions_stats["right_lung"] - regions_stats["left_lung"])
|
| 274 |
+
|
| 275 |
+
# Generate findings based on image analysis
|
| 276 |
+
findings = []
|
| 277 |
+
|
| 278 |
+
# Check for opacities (darker regions than expected)
|
| 279 |
+
if regions_stats["lower"] > overall_brightness + 10:
|
| 280 |
+
findings.append(
|
| 281 |
+
{
|
| 282 |
+
"type": "opacity",
|
| 283 |
+
"region": "lower_lung_zones",
|
| 284 |
+
"confidence": min(0.95, 0.7 + asymmetry / 50),
|
| 285 |
+
"severity": "moderate"
|
| 286 |
+
if regions_stats["lower"] > overall_brightness + 20
|
| 287 |
+
else "mild",
|
| 288 |
+
"description": f"Increased density in lower lung zones (mean: {regions_stats['lower']:.0f})",
|
| 289 |
+
}
|
| 290 |
+
)
|
| 291 |
+
|
| 292 |
+
# Check for asymmetry
|
| 293 |
+
if asymmetry > 15:
|
| 294 |
+
side = (
|
| 295 |
+
"right"
|
| 296 |
+
if regions_stats["right_lung"] > regions_stats["left_lung"]
|
| 297 |
+
else "left"
|
| 298 |
+
)
|
| 299 |
+
findings.append(
|
| 300 |
+
{
|
| 301 |
+
"type": "asymmetry",
|
| 302 |
+
"region": f"{side}_hemithorax",
|
| 303 |
+
"confidence": min(0.9, 0.6 + asymmetry / 30),
|
| 304 |
+
"severity": "mild",
|
| 305 |
+
"description": f"Asymmetric density noted, {side} side appears denser",
|
| 306 |
+
}
|
| 307 |
+
)
|
| 308 |
+
|
| 309 |
+
# Check cardiac region
|
| 310 |
+
if regions_stats["cardiac"] > overall_brightness + 25:
|
| 311 |
+
findings.append(
|
| 312 |
+
{
|
| 313 |
+
"type": "cardiomegaly",
|
| 314 |
+
"region": "cardiac_silhouette",
|
| 315 |
+
"confidence": 0.75,
|
| 316 |
+
"severity": "mild",
|
| 317 |
+
"description": "Enlarged cardiac silhouette suggested",
|
| 318 |
+
}
|
| 319 |
+
)
|
| 320 |
+
|
| 321 |
+
# If no abnormalities, report normal
|
| 322 |
+
if not findings:
|
| 323 |
+
findings.append(
|
| 324 |
+
{
|
| 325 |
+
"type": "normal",
|
| 326 |
+
"region": "bilateral_lungs",
|
| 327 |
+
"confidence": 0.85,
|
| 328 |
+
"severity": "none",
|
| 329 |
+
"description": "No significant abnormalities detected on initial analysis",
|
| 330 |
+
}
|
| 331 |
+
)
|
| 332 |
+
|
| 333 |
+
# Use MedGemma to enhance the analysis
|
| 334 |
+
if MODEL_LOADED and findings:
|
| 335 |
+
finding_desc = "; ".join([f["description"] for f in findings])
|
| 336 |
+
enhancement_prompt = f"""As a radiologist, given these image analysis findings:
|
| 337 |
+
{finding_desc}
|
| 338 |
+
|
| 339 |
+
Provide a brief (2-3 sentence) clinical interpretation of what these findings might indicate.
|
| 340 |
+
Focus on clinical relevance."""
|
| 341 |
+
|
| 342 |
+
enhanced = generate_medgemma_response(enhancement_prompt, max_tokens=100)
|
| 343 |
+
clinical_note = enhanced
|
| 344 |
+
else:
|
| 345 |
+
clinical_note = "Clinical correlation recommended."
|
| 346 |
+
|
| 347 |
+
return AgentResult(
|
| 348 |
+
agent_name=self.name,
|
| 349 |
+
status="success",
|
| 350 |
+
data={
|
| 351 |
+
"findings": findings,
|
| 352 |
+
"image_stats": regions_stats,
|
| 353 |
+
"quality_score": min(0.98, 0.7 + contrast / 100),
|
| 354 |
+
"clinical_note": clinical_note,
|
| 355 |
+
"model_used": self.model_name,
|
| 356 |
+
},
|
| 357 |
+
processing_time_ms=0,
|
| 358 |
+
)
|
| 359 |
+
|
| 360 |
+
|
| 361 |
+
class FindingInterpreterAgent(BaseAgent):
|
| 362 |
+
"""
|
| 363 |
+
Agent 2: MedGemma Finding Interpreter
|
| 364 |
+
Uses real MedGemma to interpret findings into clinical language.
|
| 365 |
+
"""
|
| 366 |
+
|
| 367 |
+
def __init__(self):
|
| 368 |
+
super().__init__("Finding Interpreter", "google/medgemma-4b-it")
|
| 369 |
+
|
| 370 |
+
def process(self, input_data: Dict, context: Optional[Dict] = None) -> AgentResult:
|
| 371 |
+
findings = input_data.get("findings", [])
|
| 372 |
+
clinical_note = input_data.get("clinical_note", "")
|
| 373 |
+
|
| 374 |
+
interpreted = []
|
| 375 |
+
|
| 376 |
+
for finding in findings:
|
| 377 |
+
if MODEL_LOADED:
|
| 378 |
+
prompt = f"""As a radiologist, interpret this chest X-ray finding:
|
| 379 |
+
|
| 380 |
+
Finding Type: {finding.get("type")}
|
| 381 |
+
Region: {finding.get("region")}
|
| 382 |
+
Severity: {finding.get("severity")}
|
| 383 |
+
Description: {finding.get("description")}
|
| 384 |
+
|
| 385 |
+
Provide:
|
| 386 |
+
1. Clinical significance (1 sentence)
|
| 387 |
+
2. Top 3 differential diagnoses
|
| 388 |
+
3. Recommended follow-up
|
| 389 |
+
|
| 390 |
+
Be concise and clinically relevant."""
|
| 391 |
+
|
| 392 |
+
response = generate_medgemma_response(prompt, max_tokens=200)
|
| 393 |
+
|
| 394 |
+
interpreted.append(
|
| 395 |
+
{
|
| 396 |
+
"original": finding,
|
| 397 |
+
"medgemma_interpretation": response,
|
| 398 |
+
"clinical_significance": self._extract_significance(
|
| 399 |
+
response, finding
|
| 400 |
+
),
|
| 401 |
+
"differential_diagnoses": self._extract_differentials(
|
| 402 |
+
response, finding
|
| 403 |
+
),
|
| 404 |
+
}
|
| 405 |
+
)
|
| 406 |
+
else:
|
| 407 |
+
# Demo fallback
|
| 408 |
+
interpreted.append(
|
| 409 |
+
{
|
| 410 |
+
"original": finding,
|
| 411 |
+
"medgemma_interpretation": "[Model not loaded - demo mode]",
|
| 412 |
+
"clinical_significance": "Clinical correlation recommended.",
|
| 413 |
+
"differential_diagnoses": ["Requires radiologist review"],
|
| 414 |
+
}
|
| 415 |
+
)
|
| 416 |
+
|
| 417 |
+
return AgentResult(
|
| 418 |
+
agent_name=self.name,
|
| 419 |
+
status="success",
|
| 420 |
+
data={
|
| 421 |
+
"interpreted_findings": interpreted,
|
| 422 |
+
"findings_count": len(findings),
|
| 423 |
+
"model_used": self.model_name if MODEL_LOADED else "Demo mode",
|
| 424 |
+
},
|
| 425 |
+
processing_time_ms=0,
|
| 426 |
+
)
|
| 427 |
+
|
| 428 |
+
def _extract_significance(self, response: str, finding: Dict) -> str:
|
| 429 |
+
# Extract first meaningful sentence from response
|
| 430 |
+
sentences = response.split(".")
|
| 431 |
+
if sentences:
|
| 432 |
+
return sentences[0].strip() + "."
|
| 433 |
+
return f"{finding.get('type', 'Finding')} requires clinical correlation."
|
| 434 |
+
|
| 435 |
+
def _extract_differentials(self, response: str, finding: Dict) -> List[str]:
|
| 436 |
+
# Default differentials based on finding type
|
| 437 |
+
defaults = {
|
| 438 |
+
"opacity": ["Pneumonia", "Atelectasis", "Mass/Nodule"],
|
| 439 |
+
"cardiomegaly": ["Heart failure", "Cardiomyopathy", "Pericardial effusion"],
|
| 440 |
+
"asymmetry": ["Pleural effusion", "Consolidation", "Mass effect"],
|
| 441 |
+
"normal": ["No significant pathology"],
|
| 442 |
+
}
|
| 443 |
+
return defaults.get(finding.get("type", ""), ["Undetermined"])
|
| 444 |
+
|
| 445 |
+
|
| 446 |
+
class ReportGeneratorAgent(BaseAgent):
|
| 447 |
+
"""
|
| 448 |
+
Agent 3: MedGemma Report Generator
|
| 449 |
+
Uses real MedGemma to create structured radiology reports.
|
| 450 |
+
"""
|
| 451 |
+
|
| 452 |
+
def __init__(self):
|
| 453 |
+
super().__init__("Report Generator", "google/medgemma-4b-it")
|
| 454 |
+
|
| 455 |
+
def process(self, input_data: Dict, context: Optional[Dict] = None) -> AgentResult:
|
| 456 |
+
interpreted = input_data.get("interpreted_findings", [])
|
| 457 |
+
clinical_history = (
|
| 458 |
+
context.get("clinical_history", "Not provided")
|
| 459 |
+
if context
|
| 460 |
+
else "Not provided"
|
| 461 |
+
)
|
| 462 |
+
|
| 463 |
+
if MODEL_LOADED:
|
| 464 |
+
# Prepare findings for MedGemma
|
| 465 |
+
findings_text = ""
|
| 466 |
+
for item in interpreted:
|
| 467 |
+
orig = item.get("original", {})
|
| 468 |
+
interp = item.get("medgemma_interpretation", "")
|
| 469 |
+
findings_text += (
|
| 470 |
+
f"- {orig.get('type', 'Finding')}: {orig.get('description', '')}\n"
|
| 471 |
+
)
|
| 472 |
+
findings_text += f" Interpretation: {interp[:150]}...\n"
|
| 473 |
+
|
| 474 |
+
prompt = f"""Generate a professional radiology report for a chest X-ray with these details:
|
| 475 |
+
|
| 476 |
+
CLINICAL HISTORY: {clinical_history}
|
| 477 |
+
|
| 478 |
+
FINDINGS FROM IMAGE ANALYSIS:
|
| 479 |
+
{findings_text if findings_text else "No significant abnormalities detected."}
|
| 480 |
+
|
| 481 |
+
Generate a complete, structured radiology report with:
|
| 482 |
+
- TECHNIQUE section
|
| 483 |
+
- COMPARISON section
|
| 484 |
+
- FINDINGS section (detailed)
|
| 485 |
+
- IMPRESSION section (numbered list)
|
| 486 |
+
- RECOMMENDATIONS
|
| 487 |
+
|
| 488 |
+
Use proper radiological terminology. Be concise but thorough."""
|
| 489 |
+
|
| 490 |
+
report_text = generate_medgemma_response(prompt, max_tokens=500)
|
| 491 |
+
else:
|
| 492 |
+
report_text = self._generate_demo_report(interpreted, clinical_history)
|
| 493 |
+
|
| 494 |
+
# Wrap in standard format
|
| 495 |
+
full_report = f"""
|
| 496 |
+
{"=" * 80}
|
| 497 |
+
CHEST RADIOGRAPH REPORT
|
| 498 |
+
Generated by RadioFlow AI System
|
| 499 |
+
{"=" * 80}
|
| 500 |
+
|
| 501 |
+
CLINICAL INDICATION:
|
| 502 |
+
{clinical_history}
|
| 503 |
+
|
| 504 |
+
{report_text}
|
| 505 |
+
|
| 506 |
+
{"=" * 80}
|
| 507 |
+
⚠️ AI-GENERATED REPORT - Requires radiologist verification before clinical use.
|
| 508 |
+
Model: {self.model_name} | Generated: {datetime.now().strftime("%Y-%m-%d %H:%M:%S")}
|
| 509 |
+
{"=" * 80}
|
| 510 |
+
"""
|
| 511 |
+
|
| 512 |
+
return AgentResult(
|
| 513 |
+
agent_name=self.name,
|
| 514 |
+
status="success",
|
| 515 |
+
data={
|
| 516 |
+
"full_report": full_report.strip(),
|
| 517 |
+
"findings_count": len(interpreted),
|
| 518 |
+
"model_used": self.model_name if MODEL_LOADED else "Demo mode",
|
| 519 |
+
},
|
| 520 |
+
processing_time_ms=0,
|
| 521 |
+
)
|
| 522 |
+
|
| 523 |
+
def _generate_demo_report(
|
| 524 |
+
self, interpreted: List[Dict], clinical_history: str
|
| 525 |
+
) -> str:
|
| 526 |
+
findings_list = []
|
| 527 |
+
for item in interpreted:
|
| 528 |
+
orig = item.get("original", {})
|
| 529 |
+
findings_list.append(f"- {orig.get('description', 'Finding noted')}")
|
| 530 |
+
|
| 531 |
+
return f"""
|
| 532 |
+
TECHNIQUE:
|
| 533 |
+
Single frontal (PA) view of the chest was obtained.
|
| 534 |
+
|
| 535 |
+
COMPARISON:
|
| 536 |
+
None available.
|
| 537 |
+
|
| 538 |
+
FINDINGS:
|
| 539 |
+
LUNGS: {chr(10).join(findings_list) if findings_list else "Clear bilaterally. No focal consolidation."}
|
| 540 |
+
|
| 541 |
+
HEART: Normal cardiac silhouette size.
|
| 542 |
+
|
| 543 |
+
MEDIASTINUM: Unremarkable.
|
| 544 |
+
|
| 545 |
+
BONES: No acute osseous abnormality.
|
| 546 |
+
|
| 547 |
+
IMPRESSION:
|
| 548 |
+
1. {"Findings as described above require clinical correlation." if interpreted else "No acute cardiopulmonary abnormality."}
|
| 549 |
+
|
| 550 |
+
RECOMMENDATIONS:
|
| 551 |
+
Clinical correlation recommended as indicated.
|
| 552 |
+
"""
|
| 553 |
+
|
| 554 |
+
|
| 555 |
+
class PriorityRouterAgent(BaseAgent):
|
| 556 |
+
"""
|
| 557 |
+
Agent 4: MedGemma Priority Router
|
| 558 |
+
Uses real MedGemma to assess urgency and route cases.
|
| 559 |
+
"""
|
| 560 |
+
|
| 561 |
+
PRIORITY_LEVELS = {
|
| 562 |
+
"STAT": {
|
| 563 |
+
"color": "#ef4444",
|
| 564 |
+
"response_time": "< 30 minutes",
|
| 565 |
+
"score_range": (0.8, 1.0),
|
| 566 |
+
},
|
| 567 |
+
"URGENT": {
|
| 568 |
+
"color": "#f59e0b",
|
| 569 |
+
"response_time": "< 4 hours",
|
| 570 |
+
"score_range": (0.5, 0.8),
|
| 571 |
+
},
|
| 572 |
+
"ROUTINE": {
|
| 573 |
+
"color": "#22c55e",
|
| 574 |
+
"response_time": "< 24 hours",
|
| 575 |
+
"score_range": (0.0, 0.5),
|
| 576 |
+
},
|
| 577 |
+
}
|
| 578 |
+
|
| 579 |
+
def __init__(self):
|
| 580 |
+
super().__init__("Priority Router", "google/medgemma-4b-it")
|
| 581 |
+
|
| 582 |
+
def process(self, input_data: Dict, context: Optional[Dict] = None) -> AgentResult:
|
| 583 |
+
full_report = input_data.get("full_report", "")
|
| 584 |
+
original_findings = context.get("original_findings", []) if context else []
|
| 585 |
+
|
| 586 |
+
# Calculate base priority score from findings
|
| 587 |
+
severity_scores = {
|
| 588 |
+
"critical": 1.0,
|
| 589 |
+
"high": 0.8,
|
| 590 |
+
"moderate": 0.5,
|
| 591 |
+
"mild": 0.3,
|
| 592 |
+
"none": 0.1,
|
| 593 |
+
}
|
| 594 |
+
max_severity = 0.2
|
| 595 |
+
for finding in original_findings:
|
| 596 |
+
sev = finding.get("severity", "none")
|
| 597 |
+
max_severity = max(max_severity, severity_scores.get(sev, 0.2))
|
| 598 |
+
|
| 599 |
+
if MODEL_LOADED:
|
| 600 |
+
# Use MedGemma for clinical priority assessment
|
| 601 |
+
prompt = f"""As a radiologist, assess the clinical priority of this chest X-ray report:
|
| 602 |
+
|
| 603 |
+
{full_report[:1000]}
|
| 604 |
+
|
| 605 |
+
Based on the findings, determine:
|
| 606 |
+
1. PRIORITY LEVEL: STAT (immediate), URGENT (within 4 hours), or ROUTINE (within 24 hours)
|
| 607 |
+
2. CRITICAL FINDINGS: List any findings requiring immediate physician notification
|
| 608 |
+
3. RECOMMENDED ACTIONS: What should happen next?
|
| 609 |
+
|
| 610 |
+
Respond concisely."""
|
| 611 |
+
|
| 612 |
+
medgemma_assessment = generate_medgemma_response(prompt, max_tokens=200)
|
| 613 |
+
|
| 614 |
+
# Adjust score based on MedGemma's assessment
|
| 615 |
+
if (
|
| 616 |
+
"STAT" in medgemma_assessment.upper()
|
| 617 |
+
or "IMMEDIATE" in medgemma_assessment.upper()
|
| 618 |
+
):
|
| 619 |
+
max_severity = max(max_severity, 0.85)
|
| 620 |
+
elif "URGENT" in medgemma_assessment.upper():
|
| 621 |
+
max_severity = max(max_severity, 0.55)
|
| 622 |
+
else:
|
| 623 |
+
medgemma_assessment = "Priority assessment based on finding severity."
|
| 624 |
+
|
| 625 |
+
# Determine priority level
|
| 626 |
+
priority_level = "ROUTINE"
|
| 627 |
+
if max_severity >= 0.8:
|
| 628 |
+
priority_level = "STAT"
|
| 629 |
+
elif max_severity >= 0.5:
|
| 630 |
+
priority_level = "URGENT"
|
| 631 |
+
|
| 632 |
+
return AgentResult(
|
| 633 |
+
agent_name=self.name,
|
| 634 |
+
status="success",
|
| 635 |
+
data={
|
| 636 |
+
"priority_score": round(max_severity, 2),
|
| 637 |
+
"priority_level": priority_level,
|
| 638 |
+
"priority_details": self.PRIORITY_LEVELS[priority_level],
|
| 639 |
+
"medgemma_assessment": medgemma_assessment,
|
| 640 |
+
"routing_recommendation": {
|
| 641 |
+
"destination": f"{priority_level} Reading Queue",
|
| 642 |
+
"notification_required": priority_level in ["STAT", "URGENT"],
|
| 643 |
+
},
|
| 644 |
+
"model_used": self.model_name if MODEL_LOADED else "Demo mode",
|
| 645 |
+
},
|
| 646 |
+
processing_time_ms=0,
|
| 647 |
+
)
|
| 648 |
+
|
| 649 |
+
|
| 650 |
+
print("✅ All agents defined with real MedGemma integration")
|
| 651 |
+
|
| 652 |
+
# %% [markdown]
|
| 653 |
+
# ## 6. Workflow Orchestrator
|
| 654 |
+
|
| 655 |
+
|
| 656 |
+
# %%
|
| 657 |
+
@dataclass
|
| 658 |
+
class WorkflowResult:
|
| 659 |
+
"""Complete result from RadioFlow workflow"""
|
| 660 |
+
|
| 661 |
+
workflow_id: str
|
| 662 |
+
status: str
|
| 663 |
+
total_duration_ms: float
|
| 664 |
+
final_report: str = ""
|
| 665 |
+
priority_level: str = "ROUTINE"
|
| 666 |
+
priority_score: float = 0.0
|
| 667 |
+
findings_count: int = 0
|
| 668 |
+
agent_results: Dict[str, AgentResult] = field(default_factory=dict)
|
| 669 |
+
|
| 670 |
+
|
| 671 |
+
class RadioFlowOrchestrator:
|
| 672 |
+
"""Main orchestrator for the RadioFlow multi-agent system."""
|
| 673 |
+
|
| 674 |
+
def __init__(self):
|
| 675 |
+
self.agents = {
|
| 676 |
+
"cxr_analyzer": CXRAnalyzerAgent(),
|
| 677 |
+
"finding_interpreter": FindingInterpreterAgent(),
|
| 678 |
+
"report_generator": ReportGeneratorAgent(),
|
| 679 |
+
"priority_router": PriorityRouterAgent(),
|
| 680 |
+
}
|
| 681 |
+
print("🚀 RadioFlow Orchestrator initialized with 4 agents")
|
| 682 |
+
|
| 683 |
+
def process(
|
| 684 |
+
self, image: Image.Image, context: Optional[Dict] = None
|
| 685 |
+
) -> WorkflowResult:
|
| 686 |
+
start = time.time()
|
| 687 |
+
workflow_id = f"rf_{datetime.now().strftime('%Y%m%d_%H%M%S')}"
|
| 688 |
+
context = context or {}
|
| 689 |
+
|
| 690 |
+
print(f"\n{'=' * 60}")
|
| 691 |
+
print(f"🩻 RadioFlow Workflow: {workflow_id}")
|
| 692 |
+
print(f" Model: {'MedGemma (REAL)' if MODEL_LOADED else 'Demo Mode'}")
|
| 693 |
+
print(f"{'=' * 60}")
|
| 694 |
+
|
| 695 |
+
# Stage 1: CXR Analysis
|
| 696 |
+
print("\n🔬 Stage 1: Analyzing chest X-ray...")
|
| 697 |
+
cxr_result = self.agents["cxr_analyzer"](image, context)
|
| 698 |
+
findings = cxr_result.data.get("findings", [])
|
| 699 |
+
print(f" ✅ Detected {len(findings)} finding(s)")
|
| 700 |
+
for f in findings[:3]:
|
| 701 |
+
print(f" • {f['type']}: {f['description'][:50]}...")
|
| 702 |
+
|
| 703 |
+
# Stage 2: Finding Interpretation
|
| 704 |
+
print("\n📋 Stage 2: Interpreting findings with MedGemma...")
|
| 705 |
+
interp_result = self.agents["finding_interpreter"](cxr_result.data, context)
|
| 706 |
+
print(f" ✅ Generated clinical interpretations")
|
| 707 |
+
|
| 708 |
+
# Stage 3: Report Generation
|
| 709 |
+
print("\n📝 Stage 3: Generating radiology report...")
|
| 710 |
+
report_result = self.agents["report_generator"](interp_result.data, context)
|
| 711 |
+
print(
|
| 712 |
+
f" ✅ Report generated ({len(report_result.data.get('full_report', ''))} chars)"
|
| 713 |
+
)
|
| 714 |
+
|
| 715 |
+
# Stage 4: Priority Routing
|
| 716 |
+
print("\n🚦 Stage 4: Assessing priority...")
|
| 717 |
+
priority_context = {**context, "original_findings": findings}
|
| 718 |
+
priority_result = self.agents["priority_router"](
|
| 719 |
+
report_result.data, priority_context
|
| 720 |
+
)
|
| 721 |
+
level = priority_result.data.get("priority_level")
|
| 722 |
+
score = priority_result.data.get("priority_score", 0)
|
| 723 |
+
print(f" ✅ Priority: {level} ({score:.0%})")
|
| 724 |
+
|
| 725 |
+
total_time = (time.time() - start) * 1000
|
| 726 |
+
|
| 727 |
+
print(f"\n{'=' * 60}")
|
| 728 |
+
print(f"✅ Workflow Complete in {total_time:.0f}ms")
|
| 729 |
+
print(f"{'=' * 60}\n")
|
| 730 |
+
|
| 731 |
+
return WorkflowResult(
|
| 732 |
+
workflow_id=workflow_id,
|
| 733 |
+
status="success",
|
| 734 |
+
total_duration_ms=total_time,
|
| 735 |
+
final_report=report_result.data.get("full_report", ""),
|
| 736 |
+
priority_level=level,
|
| 737 |
+
priority_score=score,
|
| 738 |
+
findings_count=len(findings),
|
| 739 |
+
agent_results={
|
| 740 |
+
"cxr_analyzer": cxr_result,
|
| 741 |
+
"finding_interpreter": interp_result,
|
| 742 |
+
"report_generator": report_result,
|
| 743 |
+
"priority_router": priority_result,
|
| 744 |
+
},
|
| 745 |
+
)
|
| 746 |
+
|
| 747 |
+
|
| 748 |
+
orchestrator = RadioFlowOrchestrator()
|
| 749 |
+
|
| 750 |
+
# %% [markdown]
|
| 751 |
+
# ## 7. Run Demo with Your Own Image
|
| 752 |
+
#
|
| 753 |
+
# ### Option A: Upload your own X-ray image
|
| 754 |
+
# 1. Click "Add data" in the right panel → "Upload" → Select your X-ray image
|
| 755 |
+
# 2. Set `USE_CUSTOM_IMAGE = True` below
|
| 756 |
+
# 3. Update `CUSTOM_IMAGE_PATH` with your image filename
|
| 757 |
+
#
|
| 758 |
+
# ### Option B: Use generated sample image
|
| 759 |
+
# Keep `USE_CUSTOM_IMAGE = False` to use the auto-generated sample
|
| 760 |
+
|
| 761 |
+
|
| 762 |
+
# %%
|
| 763 |
+
# ========== CONFIGURATION - EDIT THIS ==========
|
| 764 |
+
USE_CUSTOM_IMAGE = False # Set to True to use your own image
|
| 765 |
+
CUSTOM_IMAGE_PATH = "/kaggle/input/your-dataset/your-xray.jpg" # Update this path
|
| 766 |
+
# ===============================================
|
| 767 |
+
|
| 768 |
+
|
| 769 |
+
def create_sample_cxr(size=(512, 512), seed=None):
|
| 770 |
+
"""Create a simulated chest X-ray for demo purposes."""
|
| 771 |
+
if seed:
|
| 772 |
+
np.random.seed(seed)
|
| 773 |
+
|
| 774 |
+
img = Image.new("L", size, color=30)
|
| 775 |
+
draw = ImageDraw.Draw(img)
|
| 776 |
+
|
| 777 |
+
w, h = size
|
| 778 |
+
|
| 779 |
+
# Lung fields (darker areas)
|
| 780 |
+
draw.ellipse([50, 80, w // 2 - 20, h - 50], fill=20) # Left lung
|
| 781 |
+
draw.ellipse(
|
| 782 |
+
[w // 2 + 20, 80, w - 50, h - 50], fill=25
|
| 783 |
+
) # Right lung (slightly denser)
|
| 784 |
+
|
| 785 |
+
# Heart shadow (bright/dense)
|
| 786 |
+
draw.ellipse([w // 3, h // 3, 2 * w // 3, 2 * h // 3], fill=80)
|
| 787 |
+
|
| 788 |
+
# Spine
|
| 789 |
+
draw.rectangle([w // 2 - 15, 50, w // 2 + 15, h - 30], fill=90)
|
| 790 |
+
|
| 791 |
+
# Ribs
|
| 792 |
+
for i in range(8):
|
| 793 |
+
y = 100 + i * 45
|
| 794 |
+
draw.arc([30, y, w // 2 - 30, y + 40], 180, 360, fill=70, width=2)
|
| 795 |
+
draw.arc([w // 2 + 30, y, w - 30, y + 40], 180, 360, fill=70, width=2)
|
| 796 |
+
|
| 797 |
+
# Add some noise
|
| 798 |
+
img_array = np.array(img)
|
| 799 |
+
noise = np.random.normal(0, 5, img_array.shape)
|
| 800 |
+
img_array = np.clip(img_array + noise, 0, 255).astype(np.uint8)
|
| 801 |
+
|
| 802 |
+
return Image.fromarray(img_array).convert("RGB")
|
| 803 |
+
|
| 804 |
+
|
| 805 |
+
# Load image based on configuration
|
| 806 |
+
if USE_CUSTOM_IMAGE:
|
| 807 |
+
print(f"📂 Loading custom image: {CUSTOM_IMAGE_PATH}")
|
| 808 |
+
try:
|
| 809 |
+
sample_image = Image.open(CUSTOM_IMAGE_PATH).convert("RGB")
|
| 810 |
+
# Resize if too large
|
| 811 |
+
max_size = 1024
|
| 812 |
+
if max(sample_image.size) > max_size:
|
| 813 |
+
sample_image.thumbnail((max_size, max_size), Image.LANCZOS)
|
| 814 |
+
print(f" ✅ Image loaded! Size: {sample_image.size}")
|
| 815 |
+
title = "Your Chest X-Ray"
|
| 816 |
+
except Exception as e:
|
| 817 |
+
print(f" ❌ Error loading image: {e}")
|
| 818 |
+
print(" Falling back to sample image...")
|
| 819 |
+
sample_image = create_sample_cxr(seed=42)
|
| 820 |
+
title = "Sample Chest X-Ray (fallback)"
|
| 821 |
+
else:
|
| 822 |
+
print("🎨 Using generated sample image")
|
| 823 |
+
sample_image = create_sample_cxr(seed=42)
|
| 824 |
+
title = "Generated Sample Chest X-Ray"
|
| 825 |
+
|
| 826 |
+
# Display
|
| 827 |
+
plt.figure(figsize=(8, 8))
|
| 828 |
+
plt.imshow(sample_image, cmap="gray")
|
| 829 |
+
plt.title(title, fontsize=14)
|
| 830 |
+
plt.axis("off")
|
| 831 |
+
plt.show()
|
| 832 |
+
|
| 833 |
+
# %%
|
| 834 |
+
# Run the workflow
|
| 835 |
+
clinical_context = {
|
| 836 |
+
"clinical_history": "65-year-old male presenting with productive cough and low-grade fever for 5 days. History of hypertension and type 2 diabetes.",
|
| 837 |
+
"symptoms": "Cough, fever, mild dyspnea on exertion",
|
| 838 |
+
}
|
| 839 |
+
|
| 840 |
+
print("🩻 Processing chest X-ray with RadioFlow...\n")
|
| 841 |
+
result = orchestrator.process(sample_image, clinical_context)
|
| 842 |
+
|
| 843 |
+
# %% [markdown]
|
| 844 |
+
# ## 8. Results
|
| 845 |
+
|
| 846 |
+
# %%
|
| 847 |
+
# Display the generated report
|
| 848 |
+
print(result.final_report)
|
| 849 |
+
|
| 850 |
+
# %%
|
| 851 |
+
# Priority Assessment Display
|
| 852 |
+
priority_data = result.agent_results["priority_router"].data
|
| 853 |
+
colors = {"STAT": "#ef4444", "URGENT": "#f59e0b", "ROUTINE": "#22c55e"}
|
| 854 |
+
|
| 855 |
+
display(
|
| 856 |
+
HTML(f"""
|
| 857 |
+
<div style="padding: 25px; background: linear-gradient(135deg, #1e3a5f, #2d5a87);
|
| 858 |
+
border-radius: 15px; color: white; margin: 20px 0; box-shadow: 0 4px 6px rgba(0,0,0,0.3);">
|
| 859 |
+
<h2 style="margin: 0 0 20px 0; font-size: 24px;">🚦 Priority Assessment</h2>
|
| 860 |
+
<div style="display: flex; gap: 40px; flex-wrap: wrap;">
|
| 861 |
+
<div style="text-align: center;">
|
| 862 |
+
<div style="font-size: 48px; font-weight: bold; color: {colors.get(result.priority_level, "#fff")};">
|
| 863 |
+
{result.priority_level}
|
| 864 |
+
</div>
|
| 865 |
+
<div style="opacity: 0.8; font-size: 14px;">Priority Level</div>
|
| 866 |
+
</div>
|
| 867 |
+
<div style="text-align: center;">
|
| 868 |
+
<div style="font-size: 48px; font-weight: bold;">{result.priority_score:.0%}</div>
|
| 869 |
+
<div style="opacity: 0.8; font-size: 14px;">Urgency Score</div>
|
| 870 |
+
</div>
|
| 871 |
+
<div style="text-align: center;">
|
| 872 |
+
<div style="font-size: 48px; font-weight: bold;">{result.findings_count}</div>
|
| 873 |
+
<div style="opacity: 0.8; font-size: 14px;">Findings</div>
|
| 874 |
+
</div>
|
| 875 |
+
<div style="text-align: center;">
|
| 876 |
+
<div style="font-size: 48px; font-weight: bold;">{result.total_duration_ms / 1000:.1f}s</div>
|
| 877 |
+
<div style="opacity: 0.8; font-size: 14px;">Total Time</div>
|
| 878 |
+
</div>
|
| 879 |
+
</div>
|
| 880 |
+
<div style="margin-top: 20px; padding: 15px; background: rgba(255,255,255,0.1); border-radius: 8px;">
|
| 881 |
+
<strong>MedGemma Assessment:</strong><br>
|
| 882 |
+
{priority_data.get("medgemma_assessment", "N/A")[:300]}
|
| 883 |
+
</div>
|
| 884 |
+
</div>
|
| 885 |
+
""")
|
| 886 |
+
)
|
| 887 |
+
|
| 888 |
+
# %%
|
| 889 |
+
# Agent Metrics
|
| 890 |
+
metrics_data = []
|
| 891 |
+
for key, agent_result in result.agent_results.items():
|
| 892 |
+
metrics_data.append(
|
| 893 |
+
{
|
| 894 |
+
"Agent": agent_result.agent_name,
|
| 895 |
+
"Status": "✅ Success" if agent_result.status == "success" else "❌ Error",
|
| 896 |
+
"Time (ms)": f"{agent_result.processing_time_ms:.0f}",
|
| 897 |
+
"Model": agent_result.data.get("model_used", "N/A")[:40],
|
| 898 |
+
}
|
| 899 |
+
)
|
| 900 |
+
|
| 901 |
+
metrics_df = pd.DataFrame(metrics_data)
|
| 902 |
+
print("\n📊 Agent Performance Metrics:")
|
| 903 |
+
display(metrics_df)
|
| 904 |
+
|
| 905 |
+
# %%
|
| 906 |
+
# Create workflow visualization
|
| 907 |
+
fig = go.Figure()
|
| 908 |
+
|
| 909 |
+
agents = ["CXR Analyzer", "Finding Interpreter", "Report Generator", "Priority Router"]
|
| 910 |
+
times = [
|
| 911 |
+
result.agent_results["cxr_analyzer"].processing_time_ms,
|
| 912 |
+
result.agent_results["finding_interpreter"].processing_time_ms,
|
| 913 |
+
result.agent_results["report_generator"].processing_time_ms,
|
| 914 |
+
result.agent_results["priority_router"].processing_time_ms,
|
| 915 |
+
]
|
| 916 |
+
|
| 917 |
+
fig.add_trace(
|
| 918 |
+
go.Bar(
|
| 919 |
+
x=times,
|
| 920 |
+
y=agents,
|
| 921 |
+
orientation="h",
|
| 922 |
+
marker_color=["#3b82f6", "#8b5cf6", "#10b981", "#f59e0b"],
|
| 923 |
+
text=[f"{t:.0f}ms" for t in times],
|
| 924 |
+
textposition="inside",
|
| 925 |
+
textfont=dict(color="white", size=14),
|
| 926 |
+
)
|
| 927 |
+
)
|
| 928 |
+
|
| 929 |
+
fig.update_layout(
|
| 930 |
+
title="Agent Processing Times",
|
| 931 |
+
xaxis_title="Time (ms)",
|
| 932 |
+
height=300,
|
| 933 |
+
margin=dict(l=150, r=40, t=60, b=40),
|
| 934 |
+
paper_bgcolor="rgba(0,0,0,0)",
|
| 935 |
+
plot_bgcolor="rgba(0,0,0,0)",
|
| 936 |
+
)
|
| 937 |
+
|
| 938 |
+
fig.show()
|
| 939 |
+
|
| 940 |
+
# %% [markdown]
|
| 941 |
+
# ## 9. MedGemma Interpretation Showcase
|
| 942 |
+
|
| 943 |
+
# %%
|
| 944 |
+
# Show MedGemma's clinical interpretations
|
| 945 |
+
print("🧠 MedGemma Clinical Interpretations:\n")
|
| 946 |
+
print("=" * 60)
|
| 947 |
+
|
| 948 |
+
interpreted = result.agent_results["finding_interpreter"].data.get(
|
| 949 |
+
"interpreted_findings", []
|
| 950 |
+
)
|
| 951 |
+
for i, item in enumerate(interpreted, 1):
|
| 952 |
+
orig = item.get("original", {})
|
| 953 |
+
interp = item.get("medgemma_interpretation", "")
|
| 954 |
+
|
| 955 |
+
print(f"\n📋 Finding {i}: {orig.get('type', 'Unknown').upper()}")
|
| 956 |
+
print(f" Region: {orig.get('region', 'N/A')}")
|
| 957 |
+
print(f" Severity: {orig.get('severity', 'N/A')}")
|
| 958 |
+
print(f"\n 🤖 MedGemma Interpretation:")
|
| 959 |
+
print(f" {interp[:500]}")
|
| 960 |
+
print("-" * 60)
|
| 961 |
+
|
| 962 |
+
# %% [markdown]
|
| 963 |
+
# ## 10. Conclusion
|
| 964 |
+
#
|
| 965 |
+
# ### ✅ Key Technical Achievements
|
| 966 |
+
#
|
| 967 |
+
# 1. **Real MedGemma Integration**: This notebook uses the actual MedGemma-4B model for clinical
|
| 968 |
+
# interpretation, report generation, and priority assessment - not simulated responses.
|
| 969 |
+
#
|
| 970 |
+
# 2. **Multi-Agent Architecture**: Successfully implemented a 4-agent pipeline demonstrating
|
| 971 |
+
# agentic workflow principles with clear separation of concerns.
|
| 972 |
+
#
|
| 973 |
+
# 3. **Efficient Inference**: Uses 4-bit quantization (bitsandbytes) to run MedGemma on
|
| 974 |
+
# Kaggle's free T4 GPU within memory constraints.
|
| 975 |
+
#
|
| 976 |
+
# 4. **Production-Ready**: Generates professional radiology reports following clinical standards.
|
| 977 |
+
#
|
| 978 |
+
# ### 📊 Competition Alignment
|
| 979 |
+
#
|
| 980 |
+
# | Criterion | How RadioFlow Addresses It |
|
| 981 |
+
# |-----------|---------------------------|
|
| 982 |
+
# | **Effective HAI-DEF Use** | Real MedGemma inference throughout pipeline |
|
| 983 |
+
# | **Problem Domain** | Addresses radiologist burnout and workflow inefficiency |
|
| 984 |
+
# | **Impact Potential** | Quantifiable time savings and improved critical finding detection |
|
| 985 |
+
# | **Product Feasibility** | Deployable demo with clear technical architecture |
|
| 986 |
+
# | **Agentic Workflow** | 4-agent orchestrated system with handoffs |
|
| 987 |
+
#
|
| 988 |
+
# ---
|
| 989 |
+
#
|
| 990 |
+
# **🔗 Live Demo:** https://huggingface.co/spaces/SamarpeetGarad/radioflow
|
| 991 |
+
#
|
| 992 |
+
# **Thank you for reviewing the RadioFlow submission!** 🙏
|
| 993 |
+
|
| 994 |
+
# %%
|
| 995 |
+
print("\n" + "=" * 60)
|
| 996 |
+
print("🏆 RadioFlow - MedGemma Impact Challenge Submission")
|
| 997 |
+
print("=" * 60)
|
| 998 |
+
print(f"\n📊 Final Summary:")
|
| 999 |
+
print(f" • Model Used: {'MedGemma-4B (REAL)' if MODEL_LOADED else 'Demo Mode'}")
|
| 1000 |
+
print(f" • Total Processing Time: {result.total_duration_ms:.0f}ms")
|
| 1001 |
+
print(f" • Findings Detected: {result.findings_count}")
|
| 1002 |
+
print(f" • Priority Level: {result.priority_level}")
|
| 1003 |
+
print(f" • Priority Score: {result.priority_score:.0%}")
|
| 1004 |
+
print(f"\n🔗 Live Demo: https://huggingface.co/spaces/SamarpeetGarad/radioflow")
|
| 1005 |
+
print("\n✅ Notebook Complete!")
|
requirements.txt
CHANGED
|
@@ -1,8 +1,8 @@
|
|
| 1 |
# RadioFlow: AI-Powered Radiology Workflow Agent
|
| 2 |
# MedGemma Impact Challenge
|
| 3 |
|
| 4 |
-
# UI Framework -
|
| 5 |
-
gradio
|
| 6 |
|
| 7 |
# Core ML/AI
|
| 8 |
torch>=2.0.0
|
|
|
|
| 1 |
# RadioFlow: AI-Powered Radiology Workflow Agent
|
| 2 |
# MedGemma Impact Challenge
|
| 3 |
|
| 4 |
+
# UI Framework - Use stable version for HuggingFace
|
| 5 |
+
gradio==4.44.0
|
| 6 |
|
| 7 |
# Core ML/AI
|
| 8 |
torch>=2.0.0
|
sample_data/.gitkeep
ADDED
|
@@ -0,0 +1,2 @@
|
|
|
|
|
|
|
|
|
|
| 1 |
+
# Sample chest X-ray images for testing
|
| 2 |
+
# Download from NIH ChestX-ray dataset or use provided samples
|
sample_data/WhatsApp Image 2026-01-29 at 15.28.44.jpeg
ADDED
|
sample_data/WhatsApp Image 2026-01-29 at 15.29.29.jpeg
ADDED
|
sample_data/WhatsApp Image 2026-01-29 at 15.31.01.jpeg
ADDED
|
sample_data/WhatsApp Image 2026-01-29 at 15.31.50.jpeg
ADDED
|
sample_data/WhatsApp Image 2026-01-29 at 15.34.18.jpeg
ADDED
|
sample_data/real_cxr_1.png
ADDED
|
Git LFS Details
|
sample_data/real_cxr_2.jpg
ADDED
|
Git LFS Details
|
sample_data/real_cxr_bilateral.jpg
ADDED
|
Git LFS Details
|
sample_data/real_cxr_opacity.png
ADDED
|
Git LFS Details
|
sample_data/real_cxr_pneumonia.png
ADDED
|
Git LFS Details
|
space.yaml
CHANGED
|
@@ -6,7 +6,7 @@ emoji: 🩻
|
|
| 6 |
colorFrom: blue
|
| 7 |
colorTo: indigo
|
| 8 |
sdk: gradio
|
| 9 |
-
sdk_version:
|
| 10 |
app_file: app.py
|
| 11 |
pinned: true
|
| 12 |
license: cc-by-4.0
|
|
|
|
| 6 |
colorFrom: blue
|
| 7 |
colorTo: indigo
|
| 8 |
sdk: gradio
|
| 9 |
+
sdk_version: 4.44.0
|
| 10 |
app_file: app.py
|
| 11 |
pinned: true
|
| 12 |
license: cc-by-4.0
|
test_radioflow.py
ADDED
|
@@ -0,0 +1,187 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
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|
|
|
|
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|
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|
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|
|
|
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|
|
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|
|
|
|
|
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|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
"""
|
| 2 |
+
RadioFlow Test Script
|
| 3 |
+
Quick test to verify the system works correctly
|
| 4 |
+
"""
|
| 5 |
+
|
| 6 |
+
import sys
|
| 7 |
+
from PIL import Image
|
| 8 |
+
import time
|
| 9 |
+
|
| 10 |
+
|
| 11 |
+
def create_test_image():
|
| 12 |
+
"""Create a simple test image."""
|
| 13 |
+
img = Image.new('RGB', (512, 512), color=(30, 30, 40))
|
| 14 |
+
from PIL import ImageDraw
|
| 15 |
+
draw = ImageDraw.Draw(img)
|
| 16 |
+
draw.ellipse([100, 150, 412, 450], outline=(60, 60, 70), width=3)
|
| 17 |
+
return img
|
| 18 |
+
|
| 19 |
+
|
| 20 |
+
def test_agents():
|
| 21 |
+
"""Test individual agents."""
|
| 22 |
+
print("=" * 60)
|
| 23 |
+
print("Testing RadioFlow Agents")
|
| 24 |
+
print("=" * 60)
|
| 25 |
+
|
| 26 |
+
from agents import (
|
| 27 |
+
CXRAnalyzerAgent,
|
| 28 |
+
FindingInterpreterAgent,
|
| 29 |
+
ReportGeneratorAgent,
|
| 30 |
+
PriorityRouterAgent
|
| 31 |
+
)
|
| 32 |
+
|
| 33 |
+
# Test CXR Analyzer
|
| 34 |
+
print("\n[1/4] Testing CXR Analyzer...")
|
| 35 |
+
agent1 = CXRAnalyzerAgent(demo_mode=True)
|
| 36 |
+
agent1.load_model()
|
| 37 |
+
result1 = agent1(create_test_image())
|
| 38 |
+
print(f" Status: {result1.status}")
|
| 39 |
+
print(f" Findings: {len(result1.data.get('findings', []))}")
|
| 40 |
+
print(f" Time: {result1.processing_time_ms:.0f}ms")
|
| 41 |
+
|
| 42 |
+
# Test Finding Interpreter
|
| 43 |
+
print("\n[2/4] Testing Finding Interpreter...")
|
| 44 |
+
agent2 = FindingInterpreterAgent(demo_mode=True)
|
| 45 |
+
agent2.load_model()
|
| 46 |
+
result2 = agent2(result1.data)
|
| 47 |
+
print(f" Status: {result2.status}")
|
| 48 |
+
print(f" Interpreted: {len(result2.data.get('interpreted_findings', []))}")
|
| 49 |
+
print(f" Time: {result2.processing_time_ms:.0f}ms")
|
| 50 |
+
|
| 51 |
+
# Test Report Generator
|
| 52 |
+
print("\n[3/4] Testing Report Generator...")
|
| 53 |
+
agent3 = ReportGeneratorAgent(demo_mode=True)
|
| 54 |
+
agent3.load_model()
|
| 55 |
+
result3 = agent3(result2.data)
|
| 56 |
+
print(f" Status: {result3.status}")
|
| 57 |
+
print(f" Report length: {len(result3.data.get('full_report', ''))}")
|
| 58 |
+
print(f" Time: {result3.processing_time_ms:.0f}ms")
|
| 59 |
+
|
| 60 |
+
# Test Priority Router
|
| 61 |
+
print("\n[4/4] Testing Priority Router...")
|
| 62 |
+
agent4 = PriorityRouterAgent(demo_mode=True)
|
| 63 |
+
agent4.load_model()
|
| 64 |
+
context = {"original_findings": result1.data.get("findings", [])}
|
| 65 |
+
result4 = agent4(result3.data, context)
|
| 66 |
+
print(f" Status: {result4.status}")
|
| 67 |
+
print(f" Priority: {result4.data.get('priority_level')}")
|
| 68 |
+
print(f" Score: {result4.data.get('priority_score')}")
|
| 69 |
+
print(f" Time: {result4.processing_time_ms:.0f}ms")
|
| 70 |
+
|
| 71 |
+
print("\n" + "=" * 60)
|
| 72 |
+
print("✅ All agents tested successfully!")
|
| 73 |
+
print("=" * 60)
|
| 74 |
+
|
| 75 |
+
return True
|
| 76 |
+
|
| 77 |
+
|
| 78 |
+
def test_orchestrator():
|
| 79 |
+
"""Test the full orchestrator."""
|
| 80 |
+
print("\n" + "=" * 60)
|
| 81 |
+
print("Testing RadioFlow Orchestrator")
|
| 82 |
+
print("=" * 60)
|
| 83 |
+
|
| 84 |
+
from orchestrator import create_orchestrator
|
| 85 |
+
|
| 86 |
+
# Create orchestrator
|
| 87 |
+
print("\n[1/2] Creating orchestrator...")
|
| 88 |
+
orchestrator = create_orchestrator(demo_mode=True)
|
| 89 |
+
print(" ✅ Orchestrator created")
|
| 90 |
+
|
| 91 |
+
# Run workflow
|
| 92 |
+
print("\n[2/2] Running workflow...")
|
| 93 |
+
context = {
|
| 94 |
+
"clinical_history": "65-year-old with cough and fever",
|
| 95 |
+
"symptoms": "Productive cough, dyspnea"
|
| 96 |
+
}
|
| 97 |
+
|
| 98 |
+
result = orchestrator.process(create_test_image(), context)
|
| 99 |
+
|
| 100 |
+
print(f"\n Status: {result.status}")
|
| 101 |
+
print(f" Duration: {result.total_duration_ms:.0f}ms")
|
| 102 |
+
print(f" Findings: {result.findings_count}")
|
| 103 |
+
print(f" Priority: {result.priority_level} ({result.priority_score:.0%})")
|
| 104 |
+
|
| 105 |
+
print("\n" + "=" * 60)
|
| 106 |
+
print("✅ Orchestrator tested successfully!")
|
| 107 |
+
print("=" * 60)
|
| 108 |
+
|
| 109 |
+
return True
|
| 110 |
+
|
| 111 |
+
|
| 112 |
+
def test_visualization():
|
| 113 |
+
"""Test visualization functions."""
|
| 114 |
+
print("\n" + "=" * 60)
|
| 115 |
+
print("Testing Visualization Functions")
|
| 116 |
+
print("=" * 60)
|
| 117 |
+
|
| 118 |
+
from utils.visualization import (
|
| 119 |
+
create_workflow_diagram,
|
| 120 |
+
create_priority_gauge,
|
| 121 |
+
create_radar_chart
|
| 122 |
+
)
|
| 123 |
+
|
| 124 |
+
# Test workflow diagram
|
| 125 |
+
print("\n[1/3] Testing workflow diagram...")
|
| 126 |
+
agent_results = [
|
| 127 |
+
{"name": "CXR Analyzer", "status": "success", "processing_time_ms": 300},
|
| 128 |
+
{"name": "Finding Interpreter", "status": "success", "processing_time_ms": 400},
|
| 129 |
+
{"name": "Report Generator", "status": "success", "processing_time_ms": 500},
|
| 130 |
+
{"name": "Priority Router", "status": "success", "processing_time_ms": 300}
|
| 131 |
+
]
|
| 132 |
+
fig1 = create_workflow_diagram(agent_results)
|
| 133 |
+
print(" ✅ Workflow diagram created")
|
| 134 |
+
|
| 135 |
+
# Test priority gauge
|
| 136 |
+
print("\n[2/3] Testing priority gauge...")
|
| 137 |
+
fig2 = create_priority_gauge(0.65, "URGENT")
|
| 138 |
+
print(" ✅ Priority gauge created")
|
| 139 |
+
|
| 140 |
+
# Test radar chart
|
| 141 |
+
print("\n[3/3] Testing radar chart...")
|
| 142 |
+
scores = {"Lungs": 0.9, "Heart": 0.7, "Mediastinum": 0.95, "Bones": 0.85}
|
| 143 |
+
fig3 = create_radar_chart(scores)
|
| 144 |
+
print(" ✅ Radar chart created")
|
| 145 |
+
|
| 146 |
+
print("\n" + "=" * 60)
|
| 147 |
+
print("✅ All visualizations tested successfully!")
|
| 148 |
+
print("=" * 60)
|
| 149 |
+
|
| 150 |
+
return True
|
| 151 |
+
|
| 152 |
+
|
| 153 |
+
def main():
|
| 154 |
+
"""Run all tests."""
|
| 155 |
+
print("\n")
|
| 156 |
+
print("🩻 RadioFlow Test Suite")
|
| 157 |
+
print("=" * 60)
|
| 158 |
+
print("MedGemma Impact Challenge\n")
|
| 159 |
+
|
| 160 |
+
start_time = time.time()
|
| 161 |
+
|
| 162 |
+
try:
|
| 163 |
+
# Run tests
|
| 164 |
+
test_agents()
|
| 165 |
+
test_orchestrator()
|
| 166 |
+
test_visualization()
|
| 167 |
+
|
| 168 |
+
total_time = time.time() - start_time
|
| 169 |
+
|
| 170 |
+
print("\n" + "=" * 60)
|
| 171 |
+
print(f"🎉 ALL TESTS PASSED in {total_time:.1f}s")
|
| 172 |
+
print("=" * 60)
|
| 173 |
+
print("\nRadioFlow is ready!")
|
| 174 |
+
print("Run 'python app.py' to start the Gradio demo.")
|
| 175 |
+
print("=" * 60 + "\n")
|
| 176 |
+
|
| 177 |
+
return 0
|
| 178 |
+
|
| 179 |
+
except Exception as e:
|
| 180 |
+
print(f"\n❌ Test failed: {e}")
|
| 181 |
+
import traceback
|
| 182 |
+
traceback.print_exc()
|
| 183 |
+
return 1
|
| 184 |
+
|
| 185 |
+
|
| 186 |
+
if __name__ == "__main__":
|
| 187 |
+
sys.exit(main())
|