Update branding: Replace original author info with GSS-TEC/AEGIS branding and update version to v1.1.0
Browse files- AEGIS_BIO_DIGITAL_LAB10_INTEGRATION.md +428 -0
- src/backend/api/web.py +191 -3
- src/constants.py +2 -2
- src/frontend/gui/app_window.py +5 -5
- src/frontend/webui/hf_demo.py +10 -8
- src/frontend/webui/realtime_ui.py +4 -5
- src/frontend/webui/ui.py +5 -6
AEGIS_BIO_DIGITAL_LAB10_INTEGRATION.md
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| 1 |
+
# AEGIS Bio-Digital Lab 10 - Visual System Integration
|
| 2 |
+
|
| 3 |
+
## Overview
|
| 4 |
+
The sci-image system serves as the **Visual Generation Engine** for AEGIS Bio-Digital Lab 10, providing AI-powered image generation capabilities for scientific visualization across all windows, with primary focus on:
|
| 5 |
+
- **Window 7**: Disease Analysis (viruses, bacteria, pathogens)
|
| 6 |
+
- **Window 9**: Drug Development (molecular structures, drug compounds)
|
| 7 |
+
|
| 8 |
+
## System Information
|
| 9 |
+
- **Service Name**: AEGIS Bio-Digital Lab 10 - Visual System
|
| 10 |
+
- **Base Technology**: FastSD CPU (Fast Stable Diffusion on CPU)
|
| 11 |
+
- **Primary Use Cases**:
|
| 12 |
+
- Pathogen visualization (viruses, bacteria)
|
| 13 |
+
- Molecular structure generation
|
| 14 |
+
- Scientific illustration
|
| 15 |
+
- **Integration Points**: Window 7 disease discovery, Window 9 drug development completion
|
| 16 |
+
|
| 17 |
+
## API Endpoints
|
| 18 |
+
|
| 19 |
+
### Health & Monitoring
|
| 20 |
+
|
| 21 |
+
#### 1. Ping Endpoint (UptimeRobot)
|
| 22 |
+
```
|
| 23 |
+
GET /api/ping
|
| 24 |
+
```
|
| 25 |
+
**Purpose**: Health check for UptimeRobot monitoring
|
| 26 |
+
**Response**:
|
| 27 |
+
```json
|
| 28 |
+
{
|
| 29 |
+
"status": "ok",
|
| 30 |
+
"service": "AEGIS Bio-Digital Lab 10 - Visual System",
|
| 31 |
+
"version": "1.0.0",
|
| 32 |
+
"device": "cpu"
|
| 33 |
+
}
|
| 34 |
+
```
|
| 35 |
+
|
| 36 |
+
#### 2. Detailed Health Check
|
| 37 |
+
```
|
| 38 |
+
GET /api/health
|
| 39 |
+
```
|
| 40 |
+
**Purpose**: Comprehensive system health status
|
| 41 |
+
**Response**:
|
| 42 |
+
```json
|
| 43 |
+
{
|
| 44 |
+
"status": "healthy",
|
| 45 |
+
"service": "AEGIS Bio-Digital Lab 10 - Visual System",
|
| 46 |
+
"version": "1.0.0",
|
| 47 |
+
"device": "cpu",
|
| 48 |
+
"device_name": "Intel Core i7",
|
| 49 |
+
"platform": "Linux"
|
| 50 |
+
}
|
| 51 |
+
```
|
| 52 |
+
|
| 53 |
+
#### 3. System Information
|
| 54 |
+
```
|
| 55 |
+
GET /api/info
|
| 56 |
+
```
|
| 57 |
+
**Purpose**: Get detailed system information
|
| 58 |
+
|
| 59 |
+
### Window 7: Disease Analysis Endpoints
|
| 60 |
+
|
| 61 |
+
#### 4. Generate Pathogen Visualization
|
| 62 |
+
```
|
| 63 |
+
POST /api/window7/generate-pathogen
|
| 64 |
+
```
|
| 65 |
+
**Purpose**: Generate virus and bacteria visualizations for disease discovery
|
| 66 |
+
**Use Case**: When a disease is discovered in Window 7, generate visual representation of the pathogen
|
| 67 |
+
|
| 68 |
+
**Example Prompts**:
|
| 69 |
+
- "Microscopic view of [virus name] virus, scientific illustration, high detail"
|
| 70 |
+
- "3D structure of [bacteria name] bacteria, medical visualization"
|
| 71 |
+
- "Electron microscope image of [pathogen], scientific accuracy"
|
| 72 |
+
- "Viral structure of COVID-19, detailed scientific diagram"
|
| 73 |
+
- "Bacterial cell structure of E. coli, cross-section view"
|
| 74 |
+
|
| 75 |
+
**Request Body**:
|
| 76 |
+
```json
|
| 77 |
+
{
|
| 78 |
+
"prompt": "Microscopic view of Ebola virus, scientific illustration, high detail, medical accuracy",
|
| 79 |
+
"negative_prompt": "blurry, low quality, artistic, cartoon",
|
| 80 |
+
"num_inference_steps": 12,
|
| 81 |
+
"guidance_scale": 2.0,
|
| 82 |
+
"width": 512,
|
| 83 |
+
"height": 512,
|
| 84 |
+
"seed": -1,
|
| 85 |
+
"diffusion_task": "text_to_image"
|
| 86 |
+
}
|
| 87 |
+
```
|
| 88 |
+
|
| 89 |
+
#### 5. Generate Disease Visualization
|
| 90 |
+
```
|
| 91 |
+
POST /api/window7/generate-disease-visualization
|
| 92 |
+
```
|
| 93 |
+
**Purpose**: Generate disease progression and infection visualizations
|
| 94 |
+
**Use Case**: Visualize disease symptoms, affected areas, and progression
|
| 95 |
+
|
| 96 |
+
**Example Prompts**:
|
| 97 |
+
- "Medical illustration of [disease] infection in human body"
|
| 98 |
+
- "Disease progression diagram of [condition], scientific style"
|
| 99 |
+
- "Affected organs in [disease], medical visualization"
|
| 100 |
+
- "Cellular damage from [pathogen] infection, microscopic view"
|
| 101 |
+
|
| 102 |
+
### Window 9: Drug Development Endpoints
|
| 103 |
+
|
| 104 |
+
#### 6. Generate Molecule Visualization
|
| 105 |
+
```
|
| 106 |
+
POST /api/window9/generate-molecule
|
| 107 |
+
```
|
| 108 |
+
**Purpose**: Generate molecular structure visualizations
|
| 109 |
+
**Use Case**: After SMILES processing, generate visual representations of molecular structures
|
| 110 |
+
|
| 111 |
+
**Example Prompts**:
|
| 112 |
+
- "3D molecular structure of aspirin, scientific visualization"
|
| 113 |
+
- "Chemical structure diagram of [SMILES notation], high detail"
|
| 114 |
+
- "Molecular bonds and atoms of [drug name], scientific illustration"
|
| 115 |
+
- "Protein-ligand complex, molecular docking visualization"
|
| 116 |
+
|
| 117 |
+
#### 7. Generate Drug Visualization
|
| 118 |
+
```
|
| 119 |
+
POST /api/window9/generate-drug-visualization
|
| 120 |
+
```
|
| 121 |
+
**Purpose**: Generate drug compound visualizations
|
| 122 |
+
**Use Case**: Visualize drug candidates and their properties
|
| 123 |
+
|
| 124 |
+
**Example Prompts**:
|
| 125 |
+
- "Drug compound [name] in 3D, pharmaceutical visualization"
|
| 126 |
+
- "Protein-ligand binding visualization for [drug name]"
|
| 127 |
+
- "Drug molecule interaction diagram, scientific style"
|
| 128 |
+
|
| 129 |
+
### General Scientific Visualization
|
| 130 |
+
|
| 131 |
+
#### 8. Generate Scientific Visualization
|
| 132 |
+
```
|
| 133 |
+
POST /api/aegis/generate-scientific
|
| 134 |
+
```
|
| 135 |
+
**Purpose**: General scientific visualization for all AEGIS windows
|
| 136 |
+
**Use Case**: Cross-window scientific imagery generation
|
| 137 |
+
|
| 138 |
+
#### 9. General Image Generation
|
| 139 |
+
```
|
| 140 |
+
POST /api/generate
|
| 141 |
+
```
|
| 142 |
+
**Purpose**: Standard image generation endpoint
|
| 143 |
+
|
| 144 |
+
### Configuration Endpoints
|
| 145 |
+
|
| 146 |
+
#### 10. Get Configuration
|
| 147 |
+
```
|
| 148 |
+
GET /api/config
|
| 149 |
+
```
|
| 150 |
+
|
| 151 |
+
#### 11. Get Available Models
|
| 152 |
+
```
|
| 153 |
+
GET /api/models
|
| 154 |
+
```
|
| 155 |
+
|
| 156 |
+
## Integration Workflows
|
| 157 |
+
|
| 158 |
+
### Window 7: Disease Discovery Flow
|
| 159 |
+
|
| 160 |
+
```
|
| 161 |
+
1. Window 7 discovers new disease/pathogen
|
| 162 |
+
↓
|
| 163 |
+
2. Extract pathogen name and characteristics
|
| 164 |
+
↓
|
| 165 |
+
3. Call /api/window7/generate-pathogen with descriptive prompt
|
| 166 |
+
↓
|
| 167 |
+
4. Receive base64-encoded pathogen visualization
|
| 168 |
+
↓
|
| 169 |
+
5. Display in Window 7 UI alongside disease data
|
| 170 |
+
↓
|
| 171 |
+
6. Store in disease_analysis_v2 table
|
| 172 |
+
```
|
| 173 |
+
|
| 174 |
+
### Window 9: Drug Development Flow
|
| 175 |
+
|
| 176 |
+
```
|
| 177 |
+
1. Window 9 completes drug development analysis
|
| 178 |
+
↓
|
| 179 |
+
2. SMILES notation generated for drug compound
|
| 180 |
+
↓
|
| 181 |
+
3. Call /api/window9/generate-molecule with molecular prompt
|
| 182 |
+
↓
|
| 183 |
+
4. Receive base64-encoded molecular structure
|
| 184 |
+
↓
|
| 185 |
+
5. Display in Window 9 UI
|
| 186 |
+
↓
|
| 187 |
+
6. Store in drug_development table
|
| 188 |
+
```
|
| 189 |
+
|
| 190 |
+
## Example Integration Code
|
| 191 |
+
|
| 192 |
+
### Window 7: Pathogen Visualization
|
| 193 |
+
|
| 194 |
+
```javascript
|
| 195 |
+
// After disease discovery in Window 7
|
| 196 |
+
async function generatePathogenVisualization(diseaseData) {
|
| 197 |
+
const response = await fetch('https://sci-image-api.com/api/window7/generate-pathogen', {
|
| 198 |
+
method: 'POST',
|
| 199 |
+
headers: {
|
| 200 |
+
'Content-Type': 'application/json',
|
| 201 |
+
},
|
| 202 |
+
body: JSON.stringify({
|
| 203 |
+
prompt: `Microscopic view of ${diseaseData.pathogen_name} ${diseaseData.pathogen_type}, scientific illustration, high detail, medical accuracy`,
|
| 204 |
+
negative_prompt: 'blurry, low quality, artistic, cartoon, unrealistic',
|
| 205 |
+
num_inference_steps: 12,
|
| 206 |
+
guidance_scale: 2.0,
|
| 207 |
+
width: 512,
|
| 208 |
+
height: 512,
|
| 209 |
+
seed: -1,
|
| 210 |
+
diffusion_task: 'text_to_image'
|
| 211 |
+
})
|
| 212 |
+
});
|
| 213 |
+
|
| 214 |
+
const result = await response.json();
|
| 215 |
+
|
| 216 |
+
// Store in database
|
| 217 |
+
await fetch('/api/window7/disease-analysis', {
|
| 218 |
+
method: 'PATCH',
|
| 219 |
+
body: JSON.stringify({
|
| 220 |
+
id: diseaseData.id,
|
| 221 |
+
pathogen_image: result.images[0],
|
| 222 |
+
image_generation_latency: result.latency
|
| 223 |
+
})
|
| 224 |
+
});
|
| 225 |
+
|
| 226 |
+
return result.images[0]; // Base64 image
|
| 227 |
+
}
|
| 228 |
+
```
|
| 229 |
+
|
| 230 |
+
### Window 9: Molecular Visualization
|
| 231 |
+
|
| 232 |
+
```javascript
|
| 233 |
+
// After drug development completion in Window 9
|
| 234 |
+
async function generateMolecularVisualization(drugData) {
|
| 235 |
+
const response = await fetch('https://sci-image-api.com/api/window9/generate-molecule', {
|
| 236 |
+
method: 'POST',
|
| 237 |
+
headers: {
|
| 238 |
+
'Content-Type': 'application/json',
|
| 239 |
+
},
|
| 240 |
+
body: JSON.stringify({
|
| 241 |
+
prompt: `3D molecular structure of ${drugData.compound_name}, SMILES: ${drugData.smiles}, scientific visualization, high detail`,
|
| 242 |
+
negative_prompt: 'blurry, low quality, distorted, artistic',
|
| 243 |
+
num_inference_steps: 10,
|
| 244 |
+
guidance_scale: 1.8,
|
| 245 |
+
width: 512,
|
| 246 |
+
height: 512,
|
| 247 |
+
seed: -1,
|
| 248 |
+
diffusion_task: 'text_to_image'
|
| 249 |
+
})
|
| 250 |
+
});
|
| 251 |
+
|
| 252 |
+
const result = await response.json();
|
| 253 |
+
return result.images[0]; // Base64 image
|
| 254 |
+
}
|
| 255 |
+
```
|
| 256 |
+
|
| 257 |
+
## Response Format
|
| 258 |
+
|
| 259 |
+
All generation endpoints return:
|
| 260 |
+
```json
|
| 261 |
+
{
|
| 262 |
+
"latency": 2.5,
|
| 263 |
+
"images": ["base64_encoded_image_1", "base64_encoded_image_2"],
|
| 264 |
+
"error": null
|
| 265 |
+
}
|
| 266 |
+
```
|
| 267 |
+
|
| 268 |
+
## Configuration Parameters
|
| 269 |
+
|
| 270 |
+
### LCMDiffusionSetting Parameters
|
| 271 |
+
|
| 272 |
+
| Parameter | Type | Default | Description |
|
| 273 |
+
|-----------|------|---------|-------------|
|
| 274 |
+
| `prompt` | string | required | Text description of desired image |
|
| 275 |
+
| `negative_prompt` | string | "" | What to avoid in generation |
|
| 276 |
+
| `num_inference_steps` | int | 4 | Number of denoising steps (4-50) |
|
| 277 |
+
| `guidance_scale` | float | 1.0 | How closely to follow prompt (1.0-2.0) |
|
| 278 |
+
| `width` | int | 512 | Image width in pixels |
|
| 279 |
+
| `height` | int | 512 | Image height in pixels |
|
| 280 |
+
| `seed` | int | -1 | Random seed (-1 for random) |
|
| 281 |
+
| `diffusion_task` | string | "text_to_image" | "text_to_image" or "image_to_image" |
|
| 282 |
+
| `init_image` | string | null | Base64 image for img2img |
|
| 283 |
+
| `strength` | float | 0.8 | Img2img transformation strength |
|
| 284 |
+
|
| 285 |
+
## Best Practices
|
| 286 |
+
|
| 287 |
+
### For Pathogen Visualizations (Window 7)
|
| 288 |
+
1. **Prompt Structure**: "[Pathogen type] view of [pathogen name], scientific illustration, high detail, medical accuracy"
|
| 289 |
+
2. **Negative Prompts**: Always include "blurry, low quality, artistic, cartoon, unrealistic"
|
| 290 |
+
3. **Steps**: Use 10-15 steps for medical accuracy
|
| 291 |
+
4. **Guidance**: Set to 1.8-2.0 for scientific precision
|
| 292 |
+
5. **Keywords**: Include "microscopic", "electron microscope", "scientific", "medical"
|
| 293 |
+
|
| 294 |
+
**Example Prompts for Common Pathogens**:
|
| 295 |
+
- Viruses: "Electron microscope view of [virus name] virion, detailed capsid structure, scientific accuracy"
|
| 296 |
+
- Bacteria: "Microscopic view of [bacteria name] bacterial cell, flagella visible, scientific illustration"
|
| 297 |
+
- Fungi: "Microscopic structure of [fungus name], spores and hyphae, medical visualization"
|
| 298 |
+
- Parasites: "Detailed view of [parasite name], life cycle stage, scientific diagram"
|
| 299 |
+
|
| 300 |
+
### For Molecular Visualizations (Window 9)
|
| 301 |
+
1. **Include SMILES**: Reference SMILES notation in prompt when available
|
| 302 |
+
2. **Specify Style**: "3D molecular structure", "ball-and-stick model", "space-filling model"
|
| 303 |
+
3. **Scientific Terms**: Use "bonds", "atoms", "molecular geometry"
|
| 304 |
+
4. **Steps**: 8-12 for molecular accuracy
|
| 305 |
+
5. **Guidance**: 1.5-2.0 for precise structures
|
| 306 |
+
|
| 307 |
+
### Performance Optimization
|
| 308 |
+
1. Use lower `num_inference_steps` (4-6) for faster generation during development
|
| 309 |
+
2. Increase steps (10-15) for production/final visualizations
|
| 310 |
+
3. Cache frequently generated pathogen/molecule images
|
| 311 |
+
4. Batch multiple requests when generating variations
|
| 312 |
+
|
| 313 |
+
## Prompt Templates
|
| 314 |
+
|
| 315 |
+
### Window 7 Templates
|
| 316 |
+
|
| 317 |
+
#### Virus Visualization
|
| 318 |
+
```
|
| 319 |
+
"Electron microscope view of {virus_name} virus, detailed viral structure, capsid proteins visible, scientific illustration, high detail, medical accuracy"
|
| 320 |
+
```
|
| 321 |
+
|
| 322 |
+
#### Bacteria Visualization
|
| 323 |
+
```
|
| 324 |
+
"Microscopic view of {bacteria_name} bacteria, cell wall structure, flagella, scientific illustration, gram stain appearance, medical accuracy"
|
| 325 |
+
```
|
| 326 |
+
|
| 327 |
+
#### Disease Progression
|
| 328 |
+
```
|
| 329 |
+
"Medical illustration of {disease_name} infection progression in human {organ/tissue}, cellular level, scientific diagram, pathological changes"
|
| 330 |
+
```
|
| 331 |
+
|
| 332 |
+
### Window 9 Templates
|
| 333 |
+
|
| 334 |
+
#### Molecular Structure
|
| 335 |
+
```
|
| 336 |
+
"3D molecular structure of {compound_name}, SMILES: {smiles_notation}, ball-and-stick model, chemical bonds visible, scientific visualization, high detail"
|
| 337 |
+
```
|
| 338 |
+
|
| 339 |
+
#### Drug-Protein Interaction
|
| 340 |
+
```
|
| 341 |
+
"Protein-ligand binding visualization, {drug_name} docking with {protein_name}, molecular interaction diagram, scientific style, binding site highlighted"
|
| 342 |
+
```
|
| 343 |
+
|
| 344 |
+
## Monitoring
|
| 345 |
+
|
| 346 |
+
### UptimeRobot Configuration
|
| 347 |
+
- **Monitor Type**: HTTP(s)
|
| 348 |
+
- **URL**: `https://your-sci-image-api.com/api/ping`
|
| 349 |
+
- **Interval**: 5 minutes
|
| 350 |
+
- **Expected Response**: `200 OK` with `"status": "ok"`
|
| 351 |
+
|
| 352 |
+
### Health Check Schedule
|
| 353 |
+
- Ping endpoint: Every 5 minutes
|
| 354 |
+
- Health endpoint: Every 15 minutes
|
| 355 |
+
- Full system check: Every hour
|
| 356 |
+
|
| 357 |
+
## Error Handling
|
| 358 |
+
|
| 359 |
+
### Common Errors
|
| 360 |
+
|
| 361 |
+
| Error | Cause | Solution |
|
| 362 |
+
|-------|-------|----------|
|
| 363 |
+
| `latency > 30s` | Complex prompt or high steps | Reduce steps or simplify prompt |
|
| 364 |
+
| `images: []` | Generation failed | Check prompt validity |
|
| 365 |
+
| `error: "Out of memory"` | Image too large | Reduce dimensions |
|
| 366 |
+
| `error: "Model not loaded"` | Model initialization failed | Restart service |
|
| 367 |
+
|
| 368 |
+
## Database Integration
|
| 369 |
+
|
| 370 |
+
### Window 7: Storing Pathogen Images
|
| 371 |
+
|
| 372 |
+
```sql
|
| 373 |
+
-- Add pathogen_image column to disease_analysis_v2
|
| 374 |
+
ALTER TABLE disease_analysis_v2
|
| 375 |
+
ADD COLUMN pathogen_image TEXT,
|
| 376 |
+
ADD COLUMN pathogen_image_prompt TEXT,
|
| 377 |
+
ADD COLUMN image_generation_latency REAL;
|
| 378 |
+
```
|
| 379 |
+
|
| 380 |
+
### Window 9: Storing Molecular Images
|
| 381 |
+
|
| 382 |
+
```sql
|
| 383 |
+
-- Add molecular_image column to drug_development
|
| 384 |
+
ALTER TABLE drug_development
|
| 385 |
+
ADD COLUMN molecular_structure_image TEXT,
|
| 386 |
+
ADD COLUMN molecular_image_prompt TEXT,
|
| 387 |
+
ADD COLUMN image_generation_latency REAL;
|
| 388 |
+
```
|
| 389 |
+
|
| 390 |
+
## Deployment
|
| 391 |
+
|
| 392 |
+
### Environment Variables
|
| 393 |
+
```bash
|
| 394 |
+
DEVICE=cpu
|
| 395 |
+
APP_VERSION=1.0.0
|
| 396 |
+
PORT=8000
|
| 397 |
+
```
|
| 398 |
+
|
| 399 |
+
### Docker Deployment
|
| 400 |
+
```bash
|
| 401 |
+
docker build -t aegis-visual-system .
|
| 402 |
+
docker run -p 8000:8000 aegis-visual-system
|
| 403 |
+
```
|
| 404 |
+
|
| 405 |
+
### Hugging Face Space
|
| 406 |
+
- SDK: Docker
|
| 407 |
+
- App Port: 7860
|
| 408 |
+
- Python Version: 3.12 (see `.python-version`)
|
| 409 |
+
|
| 410 |
+
## Future Enhancements
|
| 411 |
+
|
| 412 |
+
1. **GPU Acceleration**: Add CUDA support for faster generation
|
| 413 |
+
2. **Model Fine-tuning**: Train on medical/scientific imagery datasets
|
| 414 |
+
3. **3D Rendering**: Generate rotatable 3D pathogen/molecule models
|
| 415 |
+
4. **Animation**: Create pathogen lifecycle and molecular interaction animations
|
| 416 |
+
5. **Style Transfer**: Apply scientific paper/textbook style
|
| 417 |
+
6. **Batch Processing**: Generate multiple variations simultaneously
|
| 418 |
+
7. **Real-time Generation**: WebSocket support for live visualization
|
| 419 |
+
|
| 420 |
+
## Version History
|
| 421 |
+
|
| 422 |
+
- **v1.0.0** (2026-05-31): Initial AEGIS Bio-Digital Lab 10 integration
|
| 423 |
+
- Added ping endpoint for UptimeRobot
|
| 424 |
+
- Added Window 7 pathogen visualization endpoints
|
| 425 |
+
- Added Window 9 molecular visualization endpoints
|
| 426 |
+
- Added AEGIS scientific visualization endpoint
|
| 427 |
+
- Added comprehensive health checks
|
| 428 |
+
- Integrated with disease discovery and drug development workflows
|
src/backend/api/web.py
CHANGED
|
@@ -16,8 +16,8 @@ from state import get_settings
|
|
| 16 |
|
| 17 |
app_settings = get_settings()
|
| 18 |
app = FastAPI(
|
| 19 |
-
title="
|
| 20 |
-
description="
|
| 21 |
version=APP_VERSION,
|
| 22 |
license_info={
|
| 23 |
"name": "MIT",
|
|
@@ -41,7 +41,39 @@ context = Context(InterfaceType.API_SERVER)
|
|
| 41 |
|
| 42 |
@app.get("/api/")
|
| 43 |
async def root():
|
| 44 |
-
return {"message": "Welcome to
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 45 |
|
| 46 |
|
| 47 |
@app.get(
|
|
@@ -108,6 +140,162 @@ async def generate(diffusion_config: LCMDiffusionSetting) -> StableDiffusionResp
|
|
| 108 |
)
|
| 109 |
|
| 110 |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 111 |
def start_web_server(port: int = 8000):
|
| 112 |
uvicorn.run(
|
| 113 |
app,
|
|
|
|
| 16 |
|
| 17 |
app_settings = get_settings()
|
| 18 |
app = FastAPI(
|
| 19 |
+
title="AEGIS Bio-Digital Lab 10 - Visual System",
|
| 20 |
+
description="Scientific visualization system for pathogen and molecular structure generation",
|
| 21 |
version=APP_VERSION,
|
| 22 |
license_info={
|
| 23 |
"name": "MIT",
|
|
|
|
| 41 |
|
| 42 |
@app.get("/api/")
|
| 43 |
async def root():
|
| 44 |
+
return {"message": "Welcome to AEGIS Bio-Digital Lab 10 - Visual System API"}
|
| 45 |
+
|
| 46 |
+
|
| 47 |
+
@app.get(
|
| 48 |
+
"/api/ping",
|
| 49 |
+
description="Health check endpoint for UptimeRobot monitoring",
|
| 50 |
+
summary="Ping endpoint",
|
| 51 |
+
)
|
| 52 |
+
async def ping():
|
| 53 |
+
"""Health check endpoint for monitoring services like UptimeRobot"""
|
| 54 |
+
return {
|
| 55 |
+
"status": "ok",
|
| 56 |
+
"service": "AEGIS Bio-Digital Lab 10 - Visual System",
|
| 57 |
+
"version": APP_VERSION,
|
| 58 |
+
"device": DEVICE,
|
| 59 |
+
}
|
| 60 |
+
|
| 61 |
+
|
| 62 |
+
@app.get(
|
| 63 |
+
"/api/health",
|
| 64 |
+
description="Detailed health check with system status",
|
| 65 |
+
summary="Health check",
|
| 66 |
+
)
|
| 67 |
+
async def health():
|
| 68 |
+
"""Detailed health check endpoint"""
|
| 69 |
+
return {
|
| 70 |
+
"status": "healthy",
|
| 71 |
+
"service": "AEGIS Bio-Digital Lab 10 - Visual System",
|
| 72 |
+
"version": APP_VERSION,
|
| 73 |
+
"device": DEVICE,
|
| 74 |
+
"device_name": get_device_name(),
|
| 75 |
+
"platform": platform.system(),
|
| 76 |
+
}
|
| 77 |
|
| 78 |
|
| 79 |
@app.get(
|
|
|
|
| 140 |
)
|
| 141 |
|
| 142 |
|
| 143 |
+
@app.post(
|
| 144 |
+
"/api/window7/generate-pathogen",
|
| 145 |
+
description="Generate virus or bacteria visualization for Window 7 Disease Analysis",
|
| 146 |
+
summary="Generate pathogen visualization",
|
| 147 |
+
)
|
| 148 |
+
async def generate_pathogen_visualization(diffusion_config: LCMDiffusionSetting) -> StableDiffusionResponse:
|
| 149 |
+
"""
|
| 150 |
+
Generate virus and bacteria visualizations for AEGIS Bio-Digital Lab 10 Window 7.
|
| 151 |
+
Used for disease discovery and pathogen identification visualization.
|
| 152 |
+
"""
|
| 153 |
+
app_settings.settings.lcm_diffusion_setting = diffusion_config
|
| 154 |
+
|
| 155 |
+
if diffusion_config.diffusion_task == DiffusionTask.image_to_image:
|
| 156 |
+
app_settings.settings.lcm_diffusion_setting.init_image = base64_image_to_pil(
|
| 157 |
+
diffusion_config.init_image
|
| 158 |
+
)
|
| 159 |
+
|
| 160 |
+
images = context.generate_text_to_image(app_settings.settings)
|
| 161 |
+
|
| 162 |
+
if images:
|
| 163 |
+
images_base64 = [pil_image_to_base64_str(img) for img in images]
|
| 164 |
+
else:
|
| 165 |
+
images_base64 = []
|
| 166 |
+
|
| 167 |
+
return StableDiffusionResponse(
|
| 168 |
+
latency=round(context.latency, 2),
|
| 169 |
+
images=images_base64,
|
| 170 |
+
error=context.error,
|
| 171 |
+
)
|
| 172 |
+
|
| 173 |
+
|
| 174 |
+
@app.post(
|
| 175 |
+
"/api/window7/generate-disease-visualization",
|
| 176 |
+
description="Generate disease and infection visualization for Window 7",
|
| 177 |
+
summary="Generate disease visualization",
|
| 178 |
+
)
|
| 179 |
+
async def generate_disease_visualization(diffusion_config: LCMDiffusionSetting) -> StableDiffusionResponse:
|
| 180 |
+
"""
|
| 181 |
+
Generate disease and infection visualizations for AEGIS Bio-Digital Lab 10 Window 7.
|
| 182 |
+
Used for visualizing disease progression, symptoms, and affected areas.
|
| 183 |
+
"""
|
| 184 |
+
app_settings.settings.lcm_diffusion_setting = diffusion_config
|
| 185 |
+
|
| 186 |
+
if diffusion_config.diffusion_task == DiffusionTask.image_to_image:
|
| 187 |
+
app_settings.settings.lcm_diffusion_setting.init_image = base64_image_to_pil(
|
| 188 |
+
diffusion_config.init_image
|
| 189 |
+
)
|
| 190 |
+
|
| 191 |
+
images = context.generate_text_to_image(app_settings.settings)
|
| 192 |
+
|
| 193 |
+
if images:
|
| 194 |
+
images_base64 = [pil_image_to_base64_str(img) for img in images]
|
| 195 |
+
else:
|
| 196 |
+
images_base64 = []
|
| 197 |
+
|
| 198 |
+
return StableDiffusionResponse(
|
| 199 |
+
latency=round(context.latency, 2),
|
| 200 |
+
images=images_base64,
|
| 201 |
+
error=context.error,
|
| 202 |
+
)
|
| 203 |
+
|
| 204 |
+
|
| 205 |
+
@app.post(
|
| 206 |
+
"/api/window9/generate-molecule",
|
| 207 |
+
description="Generate molecular structure visualization for Window 9",
|
| 208 |
+
summary="Generate molecule visualization",
|
| 209 |
+
)
|
| 210 |
+
async def generate_molecule_visualization(diffusion_config: LCMDiffusionSetting) -> StableDiffusionResponse:
|
| 211 |
+
"""
|
| 212 |
+
Generate molecular structure visualizations for AEGIS Bio-Digital Lab 10 Window 9.
|
| 213 |
+
Used for drug development visualization after SMILES processing.
|
| 214 |
+
"""
|
| 215 |
+
app_settings.settings.lcm_diffusion_setting = diffusion_config
|
| 216 |
+
|
| 217 |
+
# Ensure we're doing text-to-image for molecular structures
|
| 218 |
+
if diffusion_config.diffusion_task == DiffusionTask.image_to_image:
|
| 219 |
+
app_settings.settings.lcm_diffusion_setting.init_image = base64_image_to_pil(
|
| 220 |
+
diffusion_config.init_image
|
| 221 |
+
)
|
| 222 |
+
|
| 223 |
+
images = context.generate_text_to_image(app_settings.settings)
|
| 224 |
+
|
| 225 |
+
if images:
|
| 226 |
+
images_base64 = [pil_image_to_base64_str(img) for img in images]
|
| 227 |
+
else:
|
| 228 |
+
images_base64 = []
|
| 229 |
+
|
| 230 |
+
return StableDiffusionResponse(
|
| 231 |
+
latency=round(context.latency, 2),
|
| 232 |
+
images=images_base64,
|
| 233 |
+
error=context.error,
|
| 234 |
+
)
|
| 235 |
+
|
| 236 |
+
|
| 237 |
+
@app.post(
|
| 238 |
+
"/api/window9/generate-drug-visualization",
|
| 239 |
+
description="Generate drug compound visualization for Window 9",
|
| 240 |
+
summary="Generate drug visualization",
|
| 241 |
+
)
|
| 242 |
+
async def generate_drug_visualization(diffusion_config: LCMDiffusionSetting) -> StableDiffusionResponse:
|
| 243 |
+
"""
|
| 244 |
+
Generate drug compound visualizations for AEGIS Bio-Digital Lab 10 Window 9.
|
| 245 |
+
Used for visualizing drug candidates and their properties.
|
| 246 |
+
"""
|
| 247 |
+
app_settings.settings.lcm_diffusion_setting = diffusion_config
|
| 248 |
+
|
| 249 |
+
if diffusion_config.diffusion_task == DiffusionTask.image_to_image:
|
| 250 |
+
app_settings.settings.lcm_diffusion_setting.init_image = base64_image_to_pil(
|
| 251 |
+
diffusion_config.init_image
|
| 252 |
+
)
|
| 253 |
+
|
| 254 |
+
images = context.generate_text_to_image(app_settings.settings)
|
| 255 |
+
|
| 256 |
+
if images:
|
| 257 |
+
images_base64 = [pil_image_to_base64_str(img) for img in images]
|
| 258 |
+
else:
|
| 259 |
+
images_base64 = []
|
| 260 |
+
|
| 261 |
+
return StableDiffusionResponse(
|
| 262 |
+
latency=round(context.latency, 2),
|
| 263 |
+
images=images_base64,
|
| 264 |
+
error=context.error,
|
| 265 |
+
)
|
| 266 |
+
|
| 267 |
+
|
| 268 |
+
@app.post(
|
| 269 |
+
"/api/aegis/generate-scientific",
|
| 270 |
+
description="Generate scientific visualization for AEGIS Bio-Digital Lab 10",
|
| 271 |
+
summary="Generate scientific visualization",
|
| 272 |
+
)
|
| 273 |
+
async def generate_scientific_visualization(diffusion_config: LCMDiffusionSetting) -> StableDiffusionResponse:
|
| 274 |
+
"""
|
| 275 |
+
General scientific visualization endpoint for AEGIS Bio-Digital Lab 10.
|
| 276 |
+
Can be used across all windows for generating scientific imagery.
|
| 277 |
+
"""
|
| 278 |
+
app_settings.settings.lcm_diffusion_setting = diffusion_config
|
| 279 |
+
|
| 280 |
+
if diffusion_config.diffusion_task == DiffusionTask.image_to_image:
|
| 281 |
+
app_settings.settings.lcm_diffusion_setting.init_image = base64_image_to_pil(
|
| 282 |
+
diffusion_config.init_image
|
| 283 |
+
)
|
| 284 |
+
|
| 285 |
+
images = context.generate_text_to_image(app_settings.settings)
|
| 286 |
+
|
| 287 |
+
if images:
|
| 288 |
+
images_base64 = [pil_image_to_base64_str(img) for img in images]
|
| 289 |
+
else:
|
| 290 |
+
images_base64 = []
|
| 291 |
+
|
| 292 |
+
return StableDiffusionResponse(
|
| 293 |
+
latency=round(context.latency, 2),
|
| 294 |
+
images=images_base64,
|
| 295 |
+
error=context.error,
|
| 296 |
+
)
|
| 297 |
+
|
| 298 |
+
|
| 299 |
def start_web_server(port: int = 8000):
|
| 300 |
uvicorn.run(
|
| 301 |
app,
|
src/constants.py
CHANGED
|
@@ -2,10 +2,10 @@ from os import environ, cpu_count
|
|
| 2 |
|
| 3 |
cpu_cores = cpu_count()
|
| 4 |
cpus = cpu_cores // 2 if cpu_cores else 0
|
| 5 |
-
APP_VERSION = "v1.
|
| 6 |
LCM_DEFAULT_MODEL = "stabilityai/sd-turbo"
|
| 7 |
LCM_DEFAULT_MODEL_OPENVINO = "rupeshs/sd-turbo-openvino"
|
| 8 |
-
APP_NAME = "
|
| 9 |
APP_SETTINGS_FILE = "settings.yaml"
|
| 10 |
RESULTS_DIRECTORY = "results"
|
| 11 |
CONFIG_DIRECTORY = "configs"
|
|
|
|
| 2 |
|
| 3 |
cpu_cores = cpu_count()
|
| 4 |
cpus = cpu_cores // 2 if cpu_cores else 0
|
| 5 |
+
APP_VERSION = "v1.1.0"
|
| 6 |
LCM_DEFAULT_MODEL = "stabilityai/sd-turbo"
|
| 7 |
LCM_DEFAULT_MODEL_OPENVINO = "rupeshs/sd-turbo-openvino"
|
| 8 |
+
APP_NAME = "AEGIS Bio-Digital Lab 10 - Visual System"
|
| 9 |
APP_SETTINGS_FILE = "settings.yaml"
|
| 10 |
RESULTS_DIRECTORY = "results"
|
| 11 |
CONFIG_DIRECTORY = "configs"
|
src/frontend/gui/app_window.py
CHANGED
|
@@ -363,11 +363,11 @@ class MainWindow(QMainWindow):
|
|
| 363 |
self.label.setAlignment(Qt.AlignCenter)
|
| 364 |
current_year = datetime.now().year
|
| 365 |
self.label.setText(
|
| 366 |
-
f"""<h1>
|
| 367 |
-
<h3>
|
| 368 |
-
<h3>
|
| 369 |
-
|
| 370 |
-
<h3>
|
| 371 |
)
|
| 372 |
|
| 373 |
vlayout = QVBoxLayout()
|
|
|
|
| 363 |
self.label.setAlignment(Qt.AlignCenter)
|
| 364 |
current_year = datetime.now().year
|
| 365 |
self.label.setText(
|
| 366 |
+
f"""<h1>AEGIS Bio-Digital Lab 10 - Visual System</h1>
|
| 367 |
+
<h3>© {current_year} GSS-TEC</h3>
|
| 368 |
+
<h3>Scientific Visualization for Pathogen & Molecular Structure Generation</h3>
|
| 369 |
+
<h3>Contact: info@gss-tec.com</h3>
|
| 370 |
+
<h3>Website: https://www.gss-tec.com</h3>"""
|
| 371 |
)
|
| 372 |
|
| 373 |
vlayout = QVBoxLayout()
|
src/frontend/webui/hf_demo.py
CHANGED
|
@@ -109,13 +109,12 @@ footer {
|
|
| 109 |
|
| 110 |
|
| 111 |
def _get_footer_message() -> str:
|
| 112 |
-
version = f"<center><p> {APP_VERSION} "
|
| 113 |
current_year = datetime.now().year
|
| 114 |
-
footer_msg =
|
| 115 |
-
f'
|
| 116 |
-
"
|
| 117 |
)
|
| 118 |
-
warning_msg = "<p><b>
|
| 119 |
return warning_msg + footer_msg
|
| 120 |
|
| 121 |
|
|
@@ -123,16 +122,19 @@ with gr.Blocks(css=css) as demo:
|
|
| 123 |
with gr.Column(elem_id="container"):
|
| 124 |
use_openvino = "" if is_openvino_device() else ""
|
| 125 |
gr.Markdown(
|
| 126 |
-
f"""#
|
| 127 |
**Device : {DEVICE.upper()} , {get_device_name()} | OpenVINO**
|
|
|
|
|
|
|
|
|
|
| 128 |
""",
|
| 129 |
elem_id="intro",
|
| 130 |
)
|
| 131 |
gr.HTML(
|
| 132 |
f"""
|
| 133 |
<p id="project-links" align="center">
|
| 134 |
-
<a href='https://
|
| 135 |
-
</p>
|
| 136 |
"""
|
| 137 |
)
|
| 138 |
|
|
|
|
| 109 |
|
| 110 |
|
| 111 |
def _get_footer_message() -> str:
|
|
|
|
| 112 |
current_year = datetime.now().year
|
| 113 |
+
footer_msg = (
|
| 114 |
+
f'<center><p>© {current_year} <a href="https://www.gss-tec.com">'
|
| 115 |
+
" GSS-TEC</a> | <a href=\"mailto:info@gss-tec.com\">info@gss-tec.com</a></p></center>"
|
| 116 |
)
|
| 117 |
+
warning_msg = "<p><b>AEGIS Bio-Digital Lab 10 - Scientific Visualization System for Disease & Drug Discovery</b></p><br>"
|
| 118 |
return warning_msg + footer_msg
|
| 119 |
|
| 120 |
|
|
|
|
| 122 |
with gr.Column(elem_id="container"):
|
| 123 |
use_openvino = "" if is_openvino_device() else ""
|
| 124 |
gr.Markdown(
|
| 125 |
+
f"""# AEGIS Bio-Digital Lab 10 - Visual System {use_openvino}
|
| 126 |
**Device : {DEVICE.upper()} , {get_device_name()} | OpenVINO**
|
| 127 |
+
**Scientific Visualization for Pathogen & Molecular Structure Generation**
|
| 128 |
+
|
| 129 |
+
*Powered by [GSS-TEC](https://www.gss-tec.com) | Contact: [info@gss-tec.com](mailto:info@gss-tec.com)*
|
| 130 |
""",
|
| 131 |
elem_id="intro",
|
| 132 |
)
|
| 133 |
gr.HTML(
|
| 134 |
f"""
|
| 135 |
<p id="project-links" align="center">
|
| 136 |
+
<a href='https://www.gss-tec.com'><img src='https://img.shields.io/badge/GSS--TEC-Website-Blue'></a>
|
| 137 |
+
</p>
|
| 138 |
"""
|
| 139 |
)
|
| 140 |
|
src/frontend/webui/realtime_ui.py
CHANGED
|
@@ -82,11 +82,10 @@ footer {
|
|
| 82 |
|
| 83 |
|
| 84 |
def _get_footer_message() -> str:
|
| 85 |
-
version = f"<center><p> {APP_VERSION} "
|
| 86 |
current_year = datetime.now().year
|
| 87 |
-
footer_msg =
|
| 88 |
-
f'
|
| 89 |
-
"
|
| 90 |
)
|
| 91 |
return footer_msg
|
| 92 |
|
|
@@ -95,7 +94,7 @@ with gr.Blocks(css=css) as demo:
|
|
| 95 |
with gr.Column(elem_id="container"):
|
| 96 |
use_openvino = "- OpenVINO" if is_openvino_device() else ""
|
| 97 |
gr.Markdown(
|
| 98 |
-
f"""# Realtime
|
| 99 |
**Device : {DEVICE} , {get_device_name()}**
|
| 100 |
""",
|
| 101 |
elem_id="intro",
|
|
|
|
| 82 |
|
| 83 |
|
| 84 |
def _get_footer_message() -> str:
|
|
|
|
| 85 |
current_year = datetime.now().year
|
| 86 |
+
footer_msg = (
|
| 87 |
+
f'<center><p>© {current_year} <a href="https://www.gss-tec.com">'
|
| 88 |
+
" GSS-TEC</a> | <a href=\"mailto:info@gss-tec.com\">info@gss-tec.com</a></p></center>"
|
| 89 |
)
|
| 90 |
return footer_msg
|
| 91 |
|
|
|
|
| 94 |
with gr.Column(elem_id="container"):
|
| 95 |
use_openvino = "- OpenVINO" if is_openvino_device() else ""
|
| 96 |
gr.Markdown(
|
| 97 |
+
f"""# AEGIS Bio-Digital Lab 10 - Realtime Visual System {use_openvino}
|
| 98 |
**Device : {DEVICE} , {get_device_name()}**
|
| 99 |
""",
|
| 100 |
elem_id="intro",
|
src/frontend/webui/ui.py
CHANGED
|
@@ -17,11 +17,10 @@ app_settings = get_settings()
|
|
| 17 |
|
| 18 |
|
| 19 |
def _get_footer_message() -> str:
|
| 20 |
-
version = f"<center><p> {APP_VERSION} "
|
| 21 |
current_year = datetime.now().year
|
| 22 |
-
footer_msg =
|
| 23 |
-
f'
|
| 24 |
-
"
|
| 25 |
)
|
| 26 |
return footer_msg
|
| 27 |
|
|
@@ -49,11 +48,11 @@ def get_web_ui() -> gr.Blocks:
|
|
| 49 |
primary_hue="blue",
|
| 50 |
)
|
| 51 |
with gr.Blocks(
|
| 52 |
-
title="
|
| 53 |
theme=theme,
|
| 54 |
css="footer {visibility: hidden}",
|
| 55 |
) as fastsd_web_ui:
|
| 56 |
-
gr.HTML("<center><H1>
|
| 57 |
gr.Markdown(
|
| 58 |
f"**Processor : {get_device_name()}**",
|
| 59 |
elem_id="processor",
|
|
|
|
| 17 |
|
| 18 |
|
| 19 |
def _get_footer_message() -> str:
|
|
|
|
| 20 |
current_year = datetime.now().year
|
| 21 |
+
footer_msg = (
|
| 22 |
+
f'<center><p>© {current_year} <a href="https://www.gss-tec.com">'
|
| 23 |
+
" GSS-TEC</a> | <a href=\"mailto:info@gss-tec.com\">info@gss-tec.com</a></p></center>"
|
| 24 |
)
|
| 25 |
return footer_msg
|
| 26 |
|
|
|
|
| 48 |
primary_hue="blue",
|
| 49 |
)
|
| 50 |
with gr.Blocks(
|
| 51 |
+
title="AEGIS Bio-Digital Lab 10",
|
| 52 |
theme=theme,
|
| 53 |
css="footer {visibility: hidden}",
|
| 54 |
) as fastsd_web_ui:
|
| 55 |
+
gr.HTML("<center><H1>AEGIS Bio-Digital Lab 10 - Visual System</H1></center>")
|
| 56 |
gr.Markdown(
|
| 57 |
f"**Processor : {get_device_name()}**",
|
| 58 |
elem_id="processor",
|