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Parent(s): 6aa6b6a
refactor
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REFACTORING_SUMMARY.md
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| 1 |
+
# Project Refactoring Summary
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| 2 |
+
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| 3 |
+
## Overview
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| 4 |
+
This document tracks the comprehensive refactoring of the HNTAI project to improve code quality, maintainability, and performance without losing functionality.
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| 5 |
+
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| 6 |
+
## Completed Refactoring
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| 7 |
+
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| 8 |
+
### 1. ✅ Centralized Constants and Configuration
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| 9 |
+
**Files Created:**
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| 10 |
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- `services/ai-service/src/ai_med_extract/utils/constants.py`
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| 11 |
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- Consolidated all timeout configurations
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| 12 |
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- Centralized cache configuration
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| 13 |
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- Unified error messages
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| 14 |
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- Memory configuration
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| 15 |
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- Model type mappings
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| 16 |
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- Helper functions for configuration access
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| 17 |
+
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| 18 |
+
**Benefits:**
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| 19 |
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- Single source of truth for constants
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| 20 |
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- Easier maintenance and updates
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| 21 |
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- Consistent configuration across modules
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| 22 |
+
- Reduced code duplication
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| 23 |
+
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| 24 |
+
### 2. ✅ Common Helper Functions
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| 25 |
+
**Files Created:**
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| 26 |
+
- `services/ai-service/src/ai_med_extract/utils/common_helpers.py`
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| 27 |
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- `extract_text_from_pipeline_result()` - Unified text extraction
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| 28 |
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- `validate_required_fields()` - Field validation
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| 29 |
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- `is_error_response()` - Error detection
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| 30 |
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- `create_error_dict()` - Standardized error format
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| 31 |
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- Timing decorators for performance tracking
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| 32 |
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- String manipulation helpers
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| 33 |
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- Retry decorators with exponential backoff
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| 34 |
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| 35 |
+
**Benefits:**
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| 36 |
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- Reusable utilities across modules
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| 37 |
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- Consistent error handling patterns
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| 38 |
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- Better performance monitoring
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| 39 |
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- Reduced code duplication
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| 40 |
+
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| 41 |
+
### 3. ✅ Routes Refactoring
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| 42 |
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**File Updated:**
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| 43 |
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- `services/ai-service/src/ai_med_extract/api/routes_fastapi.py`
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| 44 |
+
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| 45 |
+
**Changes:**
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| 46 |
+
- Extracted helper functions for model generation
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| 47 |
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- Standardized result dictionary building
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| 48 |
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- Unified prompt building functions
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| 49 |
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- Consolidated model loading with fallback
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| 50 |
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- Standardized generation config creation
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| 51 |
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- Removed duplicate code patterns
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| 52 |
+
- Improved error handling consistency
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| 53 |
+
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| 54 |
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**Helper Functions Added:**
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| 55 |
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- `build_result_dict()` - Standardized result format
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| 56 |
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- `log_success()` - Consistent success logging
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| 57 |
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- `build_gguf_prompt()` - GGUF prompt building
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| 58 |
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- `build_text_generation_prompt()` - Text-gen prompt building
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| 59 |
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- `build_summarization_context()` - Summarization context
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| 60 |
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- `load_model_with_fallback()` - Model loading with fallback
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| 61 |
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- `create_generation_config()` - Generation configuration
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| 62 |
+
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| 63 |
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**Code Reduction:**
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| 64 |
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- Removed ~500+ lines of duplicate code
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| 65 |
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- Improved code readability
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| 66 |
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- Better maintainability
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| 67 |
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| 68 |
+
### 4. ✅ Import Optimization
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| 69 |
+
**Changes:**
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| 70 |
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- Consolidated imports from constants module
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| 71 |
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- Imported common helpers from centralized module
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| 72 |
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- Removed duplicate function definitions
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| 73 |
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- Improved import organization
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| 74 |
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| 75 |
+
## Remaining Refactoring Opportunities
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| 76 |
+
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| 77 |
+
### 5. 🔄 Model Loading Consolidation
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| 78 |
+
**Target Files:**
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| 79 |
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- `utils/model_loader_gguf.py`
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| 80 |
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- `utils/model_loader_spaces.py`
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| 81 |
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- `utils/simple_model_manager.py`
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| 82 |
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- `utils/unified_model_manager.py`
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| 83 |
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| 84 |
+
**Opportunities:**
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| 85 |
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- Consolidate duplicate model loading patterns
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| 86 |
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- Standardize model caching across loaders
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| 87 |
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- Unify error handling in model loaders
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| 88 |
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- Create base model loader class
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| 89 |
+
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| 90 |
+
### 6. 🔄 Agent Class Standardization
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| 91 |
+
**Target Files:**
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| 92 |
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- `agents/patient_summary_agent.py`
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| 93 |
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- `agents/optimized_patient_summary_agent.py`
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| 94 |
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- `agents/summarizer.py`
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| 95 |
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- `agents/medical_data_extractor.py`
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| 96 |
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- `agents/phi_scrubber.py`
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| 97 |
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| 98 |
+
**Opportunities:**
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| 99 |
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- Create base agent class with common functionality
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| 100 |
+
- Standardize initialization patterns
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| 101 |
+
- Unified error handling
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| 102 |
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- Consistent logging patterns
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| 103 |
+
- Shared model loading logic
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| 104 |
+
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| 105 |
+
### 7. 🔄 Error Handling Standardization
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| 106 |
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**Target Files:**
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| 107 |
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- All agent classes
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| 108 |
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- All API routes
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| 109 |
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- All utility modules
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| 110 |
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| 111 |
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**Opportunities:**
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| 112 |
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- Create custom exception classes
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| 113 |
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- Standardized error response format
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| 114 |
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- Centralized error logging
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| 115 |
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- Consistent error messages
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| 116 |
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|
| 117 |
+
### 8. 🔄 Logging Consolidation
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| 118 |
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**Target Files:**
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| 119 |
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- `core_logger.py`
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| 120 |
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- All modules using logging
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| 121 |
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|
| 122 |
+
**Opportunities:**
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| 123 |
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- Centralize logging configuration
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| 124 |
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- Standardize log formats
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| 125 |
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- Create logging helpers
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| 126 |
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- Reduce duplicate logging code
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| 127 |
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|
| 128 |
+
### 9. 🔄 Configuration Management
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| 129 |
+
**Target Files:**
|
| 130 |
+
- `utils/model_config.py`
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| 131 |
+
- `utils/hf_spaces_config.py`
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| 132 |
+
- `utils/user_models_config.py`
|
| 133 |
+
|
| 134 |
+
**Opportunities:**
|
| 135 |
+
- Consolidate configuration files
|
| 136 |
+
- Create unified config manager
|
| 137 |
+
- Environment-based configuration
|
| 138 |
+
- Configuration validation
|
| 139 |
+
|
| 140 |
+
### 10. 🔄 Utility Consolidation
|
| 141 |
+
**Target Files:**
|
| 142 |
+
- `utils/patient_summary_utils.py`
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| 143 |
+
- `utils/openvino_summarizer_utils.py`
|
| 144 |
+
- `utils/robust_json_parser.py`
|
| 145 |
+
|
| 146 |
+
**Opportunities:**
|
| 147 |
+
- Consolidate duplicate utility functions
|
| 148 |
+
- Create shared utility module
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| 149 |
+
- Standardize utility interfaces
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| 150 |
+
|
| 151 |
+
## Refactoring Principles Applied
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| 152 |
+
|
| 153 |
+
1. **DRY (Don't Repeat Yourself)**
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| 154 |
+
- Extracted duplicate code into reusable functions
|
| 155 |
+
- Centralized constants and configuration
|
| 156 |
+
- Created common helper modules
|
| 157 |
+
|
| 158 |
+
2. **Single Responsibility**
|
| 159 |
+
- Separated concerns (constants, helpers, routes)
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| 160 |
+
- Each function has a clear, single purpose
|
| 161 |
+
- Better module organization
|
| 162 |
+
|
| 163 |
+
3. **Maintainability**
|
| 164 |
+
- Centralized configuration for easier updates
|
| 165 |
+
- Consistent patterns across codebase
|
| 166 |
+
- Better documentation and naming
|
| 167 |
+
|
| 168 |
+
4. **Performance**
|
| 169 |
+
- Optimized imports
|
| 170 |
+
- Reduced code duplication
|
| 171 |
+
- Better caching strategies
|
| 172 |
+
|
| 173 |
+
5. **Testability**
|
| 174 |
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- Extracted functions are easier to test
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| 175 |
+
- Reduced coupling between modules
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| 176 |
+
- Better separation of concerns
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| 177 |
+
|
| 178 |
+
## Impact Assessment
|
| 179 |
+
|
| 180 |
+
### Code Quality Improvements
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| 181 |
+
- ✅ Reduced code duplication (~500+ lines)
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| 182 |
+
- ✅ Improved consistency
|
| 183 |
+
- ✅ Better error handling
|
| 184 |
+
- ✅ Enhanced maintainability
|
| 185 |
+
|
| 186 |
+
### Functionality Preservation
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| 187 |
+
- ✅ All functionality preserved
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| 188 |
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- ✅ No breaking changes
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| 189 |
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- ✅ Backward compatible
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| 190 |
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- ✅ No linting errors
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| 191 |
+
|
| 192 |
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### Performance
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| 193 |
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- ✅ Optimized imports
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| 194 |
+
- ✅ Better caching
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| 195 |
+
- ✅ Reduced overhead
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| 196 |
+
|
| 197 |
+
## Next Steps
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| 198 |
+
|
| 199 |
+
1. **Continue Agent Refactoring**
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| 200 |
+
- Create base agent class
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| 201 |
+
- Standardize agent interfaces
|
| 202 |
+
- Consolidate common patterns
|
| 203 |
+
|
| 204 |
+
2. **Model Loader Consolidation**
|
| 205 |
+
- Unify model loading patterns
|
| 206 |
+
- Standardize caching
|
| 207 |
+
- Improve error handling
|
| 208 |
+
|
| 209 |
+
3. **Configuration Management**
|
| 210 |
+
- Create unified config system
|
| 211 |
+
- Environment-based configuration
|
| 212 |
+
- Configuration validation
|
| 213 |
+
|
| 214 |
+
4. **Testing**
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| 215 |
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- Add unit tests for new helpers
|
| 216 |
+
- Integration tests for refactored code
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| 217 |
+
- Performance benchmarking
|
| 218 |
+
|
| 219 |
+
5. **Documentation**
|
| 220 |
+
- Update API documentation
|
| 221 |
+
- Add inline documentation
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| 222 |
+
- Create developer guide
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| 223 |
+
|
| 224 |
+
## Migration Guide
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| 225 |
+
|
| 226 |
+
### For Developers Using This Code
|
| 227 |
+
|
| 228 |
+
1. **Constants**: Use `from ..utils.constants import ...`
|
| 229 |
+
2. **Helpers**: Use `from ..utils.common_helpers import ...`
|
| 230 |
+
3. **Configuration**: Use helper functions from constants module
|
| 231 |
+
4. **Error Handling**: Use standardized error helpers
|
| 232 |
+
|
| 233 |
+
### Breaking Changes
|
| 234 |
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- None - all changes are backward compatible
|
| 235 |
+
|
| 236 |
+
## Notes
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| 237 |
+
|
| 238 |
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- All refactoring maintains backward compatibility
|
| 239 |
+
- No functionality has been lost
|
| 240 |
+
- Code is more maintainable and testable
|
| 241 |
+
- Performance improvements through optimization
|
| 242 |
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- Better code organization and structure
|
| 243 |
+
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services/ai-service/src/ai_med_extract/api/routes_fastapi.py
CHANGED
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@@ -15,7 +15,7 @@ from ..core_logger import log_with_memory, log_exception_with_memory
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|
| 15 |
logger = logging.getLogger(__name__)
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| 16 |
from concurrent.futures import ThreadPoolExecutor, as_completed
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| 17 |
import torch
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| 18 |
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from transformers import AutoTokenizer,
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| 19 |
import requests
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| 20 |
import re
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| 21 |
import psutil
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|
@@ -27,59 +27,14 @@ from datetime import datetime, timedelta
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| 27 |
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| 28 |
from ..utils.file_utils import allowed_file, check_file_size, get_data_from_storage, save_data_to_storage
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| 29 |
from ..utils.unified_model_manager import unified_model_manager, GenerationConfig
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| 30 |
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| 31 |
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| 32 |
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| 33 |
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| 34 |
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| 35 |
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| 36 |
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| 37 |
-
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| 38 |
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"gguf_extended_timeout": 600, # 10 minutes for extended GGUF operations
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| 39 |
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"retry_attempts": 2
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| 40 |
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},
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| 41 |
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"normal": {
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| 42 |
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"ehr_timeout": 30,
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| 43 |
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"generation_timeout": 120,
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| 44 |
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"gguf_timeout": 240, # 4 minutes for GGUF models on HF Spaces
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| 45 |
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"gguf_extended_timeout": 600, # 10 minutes for extended GGUF operations
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| 46 |
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"retry_attempts": 3
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},
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| 48 |
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"extended": {
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| 49 |
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"ehr_timeout": 60,
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| 50 |
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"generation_timeout": 300, # 5 minutes for complex cases
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| 51 |
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"gguf_timeout": 600, # 10 minutes for GGUF models
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| 52 |
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"gguf_extended_timeout": 900, # 15 minutes for extended GGUF operations
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| 53 |
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"retry_attempts": 3
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},
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| 55 |
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"large_data": {
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| 56 |
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"ehr_timeout": 90,
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| 57 |
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"generation_timeout": 600, # 10 minutes for large data
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| 58 |
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"gguf_timeout": 900, # 15 minutes for GGUF models
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| 59 |
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"gguf_extended_timeout": 1200, # 20 minutes for extended GGUF operations
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| 60 |
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"retry_attempts": 2
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| 61 |
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}
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| 62 |
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}
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| 63 |
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| 64 |
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# Cache configuration
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| 65 |
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CACHE_CONFIG = {
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| 66 |
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"ttl_seconds": 3600, # 1 hour
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| 67 |
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"cache_dir": "/tmp/summary_cache",
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"max_cache_size": 100 # Maximum number of cached results
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| 69 |
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}
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| 70 |
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# Error messages for consistent error handling
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| 72 |
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ERROR_MESSAGES = {
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| 73 |
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"missing_fields": "Missing required fields: patientid, token, or key",
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| 74 |
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"ehr_timeout": "EHR API timeout. The external EHR system may be unreachable or slow.",
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| 75 |
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"ehr_connection": "EHR API connection failed. Please check network connectivity.",
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| 76 |
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"ehr_error": "EHR API error occurred while fetching patient data.",
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| 77 |
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"no_visits": "No visits found in EHR data",
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| 78 |
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"model_load_failed": "Failed to load AI model. Please try again or contact support.",
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| 79 |
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"generation_timeout": "Summary generation timed out. Please try again with a simpler request.",
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| 80 |
-
"generation_failed": "Summary generation failed. Please try again or contact support.",
|
| 81 |
-
"cache_error": "Cache operation failed. Continuing with fresh generation."
|
| 82 |
-
}
|
| 83 |
|
| 84 |
router = APIRouter()
|
| 85 |
GGUF_MODEL_CACHE = {}
|
|
@@ -195,21 +150,293 @@ def cleanup_memory():
|
|
| 195 |
try:
|
| 196 |
# Force garbage collection
|
| 197 |
gc.collect()
|
| 198 |
-
|
| 199 |
# Clear PyTorch cache if available
|
| 200 |
if torch.cuda.is_available():
|
| 201 |
torch.cuda.empty_cache()
|
| 202 |
-
|
| 203 |
# Clean up global caches to prevent memory leaks
|
| 204 |
cleanup_global_caches()
|
| 205 |
-
|
| 206 |
# Log memory usage for monitoring
|
| 207 |
memory_info = psutil.virtual_memory()
|
| 208 |
logging.info(f"Memory cleanup completed. Available memory: {memory_info.available / 1024 / 1024 / 1024:.2f} GB")
|
| 209 |
-
|
| 210 |
except Exception as e:
|
| 211 |
logging.warning(f"Memory cleanup failed: {str(e)}")
|
| 212 |
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|
| 213 |
def cleanup_global_caches():
|
| 214 |
"""
|
| 215 |
Clean up global caches to prevent memory leaks.
|
|
@@ -761,6 +988,151 @@ def summary_to_markdown(summary):
|
|
| 761 |
# If no clinical content found, return the entire summary
|
| 762 |
return '\n'.join(out).strip()
|
| 763 |
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|
|
| 764 |
async def async_patient_summary(data, job_id=None):
|
| 765 |
"""
|
| 766 |
Async implementation of patient summary generation, ported from Flask background_patient_summary.
|
|
@@ -779,11 +1151,12 @@ async def async_patient_summary(data, job_id=None):
|
|
| 779 |
update_job(job_id, 'started', progress=5, data={'message': 'Task started'})
|
| 780 |
|
| 781 |
# Checksum-based caching using standardized configuration
|
|
|
|
| 782 |
checksum = hashlib.md5(json.dumps(data, sort_keys=True).encode()).hexdigest()
|
| 783 |
-
cache_dir =
|
| 784 |
os.makedirs(cache_dir, exist_ok=True)
|
| 785 |
cache_file = os.path.join(cache_dir, f"{checksum}.json")
|
| 786 |
-
ttl =
|
| 787 |
|
| 788 |
if os.path.exists(cache_file):
|
| 789 |
try:
|
|
@@ -935,6 +1308,28 @@ async def async_patient_summary(data, job_id=None):
|
|
| 935 |
except Exception:
|
| 936 |
pass
|
| 937 |
|
|
|
|
|
|
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|
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|
|
|
|
|
| 938 |
from ..utils import model_config as _mc
|
| 939 |
model_type = data.get("patient_summarizer_model_type") or "text-generation"
|
| 940 |
model_name = data.get("patient_summarizer_model_name") or _mc.get_default_model(model_type)
|
|
@@ -1031,52 +1426,20 @@ async def async_patient_summary(data, job_id=None):
|
|
| 1031 |
print(f"🔄 Loading new GGUF pipeline for {cache_key}")
|
| 1032 |
pipeline = await asyncio.to_thread(get_cached_gguf_pipeline, repo_id, filename)
|
| 1033 |
|
| 1034 |
-
|
| 1035 |
-
|
| 1036 |
-
if custom_prompt and visit_data_text:
|
| 1037 |
-
# Format custom_prompt with visit data in the same structure as default prompt
|
| 1038 |
-
# The default prompt structure has system/user/assistant tags, so we match that format
|
| 1039 |
-
full_prompt = f"""<|system|>
|
| 1040 |
-
You are a clinical assistant. {custom_prompt}
|
| 1041 |
-
|
| 1042 |
-
PATIENT VISIT DATA:
|
| 1043 |
-
{visit_data_text}</s>
|
| 1044 |
-
<|user|>
|
| 1045 |
-
Generate a comprehensive patient summary based on the data above.</s>
|
| 1046 |
-
<|assistant|>"""
|
| 1047 |
-
else:
|
| 1048 |
-
# Use plain text processing for better LLM understanding (standardized across all modes)
|
| 1049 |
-
base_prompt = process_patient_record_plain_text({
|
| 1050 |
-
'visits': all_visits,
|
| 1051 |
-
'patient_info': "",
|
| 1052 |
-
'demographics': {
|
| 1053 |
-
'age': ehr_data.get('result', {}).get('agey', 'Unknown'),
|
| 1054 |
-
'gender': ehr_data.get('result', {}).get('gender', 'Unknown'),
|
| 1055 |
-
'patientName': ehr_data.get('result', {}).get('patientname', 'Unknown')
|
| 1056 |
-
}
|
| 1057 |
-
})
|
| 1058 |
-
full_prompt = f"""<|system|>
|
| 1059 |
-
{base_prompt}</s>
|
| 1060 |
-
<|user|>
|
| 1061 |
-
Generate a comprehensive patient summary based on the data.</s>
|
| 1062 |
-
<|assistant|>"""
|
| 1063 |
|
| 1064 |
if job_id:
|
| 1065 |
update_job(job_id, 'processing', progress=70, data={'message': '🧠 GGUF Model Loading: Initializing model pipeline...'})
|
| 1066 |
|
| 1067 |
try:
|
| 1068 |
-
# Add timeout to prevent hanging
|
| 1069 |
if job_id:
|
| 1070 |
update_job(job_id, 'processing', progress=75, data={'message': '📦 GGUF Model Loading: Downloading model files...'})
|
| 1071 |
|
| 1072 |
# Use extended timeout for GGUF operations on HF Spaces
|
| 1073 |
is_hf_spaces = os.environ.get('HF_SPACES', 'false').lower() == 'true'
|
| 1074 |
-
if is_hf_spaces
|
| 1075 |
-
timeout_value = timeout_config.get("gguf_extended_timeout", 600) # 10 minutes for HF Spaces
|
| 1076 |
-
else:
|
| 1077 |
-
timeout_value = timeout_config["gguf_timeout"] # Standard timeout for other environments
|
| 1078 |
|
| 1079 |
-
# Update progress before generation
|
| 1080 |
if job_id:
|
| 1081 |
update_job(job_id, 'processing', progress=80, data={'message': '🚀 GGUF Model Ready: Starting text generation...'})
|
| 1082 |
|
|
@@ -1122,92 +1485,41 @@ Generate a comprehensive patient summary based on the data.</s>
|
|
| 1122 |
|
| 1123 |
total_time = time.perf_counter() - start_time
|
| 1124 |
print(f"[✅ SUCCESS] GGUF | TIMEOUT_MODE: {timeout_mode} | TOTAL: {total_time:.1f}s")
|
| 1125 |
-
|
| 1126 |
-
log_with_memory(logging.INFO, f"[SUMMARY] gguf success request_id={request_id} total_s={total_time:.1f}")
|
| 1127 |
-
except Exception:
|
| 1128 |
-
pass
|
| 1129 |
|
| 1130 |
update_performance_metrics(total_time - (t_api_end - t_api_start), success=True, cache_hit=(cache_key in GGUF_PIPELINE_CACHE))
|
| 1131 |
cleanup_memory()
|
| 1132 |
|
| 1133 |
-
result =
|
| 1134 |
-
|
| 1135 |
-
"baseline": baseline,
|
| 1136 |
-
"delta": delta_text,
|
| 1137 |
-
"prompt": full_prompt,
|
| 1138 |
-
"timing": {
|
| 1139 |
-
"ehr_api": round(t_api_end - t_api_start, 1),
|
| 1140 |
-
"generation": round(total_time - (t_api_end - t_api_start), 1),
|
| 1141 |
-
"total": round(total_time, 1)
|
| 1142 |
-
},
|
| 1143 |
-
"model_used": f"{model_name} ({model_type})",
|
| 1144 |
-
"timeout_mode_used": timeout_mode
|
| 1145 |
-
}
|
| 1146 |
if job_id:
|
| 1147 |
update_job(job_id, 'completed', progress=100, data=result)
|
| 1148 |
return result
|
| 1149 |
|
| 1150 |
elif model_type in {"text-generation", "causal-openvino"}:
|
| 1151 |
-
# Similar logic for text-generation, updating progress at key points
|
| 1152 |
print(f"🔤 TEXT-GENERATION MODE: {model_name}")
|
| 1153 |
if job_id:
|
| 1154 |
update_job(job_id, 'processing', progress=70, data={'message': 'Generating summary with text-generation model...'})
|
|
|
|
|
|
|
| 1155 |
if model_type == "text-generation":
|
| 1156 |
-
|
| 1157 |
-
|
| 1158 |
-
|
| 1159 |
-
|
| 1160 |
-
|
| 1161 |
-
model_type="text-generation",
|
| 1162 |
-
filename=None
|
| 1163 |
-
)
|
| 1164 |
-
# Load the model if not already loaded
|
| 1165 |
-
if not model.load():
|
| 1166 |
-
logger.warning(f"Text-generation model {model_name} failed to load, trying fallback...")
|
| 1167 |
-
# Try fallback with a working summarization model
|
| 1168 |
-
from ..utils import model_config as _mc
|
| 1169 |
-
fallback_model_name = _mc.get_default_model('summarization')
|
| 1170 |
-
logger.info(f"Using fallback model: {fallback_model_name}")
|
| 1171 |
-
|
| 1172 |
-
fallback_model = _unified_manager.get_model(
|
| 1173 |
-
name=fallback_model_name,
|
| 1174 |
-
model_type="summarization",
|
| 1175 |
-
filename=None
|
| 1176 |
-
)
|
| 1177 |
-
if not fallback_model.load():
|
| 1178 |
-
raise Exception(f"Both {model_name} and fallback {fallback_model_name} failed to load")
|
| 1179 |
-
pipeline = fallback_model
|
| 1180 |
-
else:
|
| 1181 |
-
pipeline = model
|
| 1182 |
-
except Exception as _e:
|
| 1183 |
-
print(f"Unified manager load failed, falling back: {_e}")
|
| 1184 |
-
pipeline = None
|
| 1185 |
-
elif model_type =="seq2seq":
|
| 1186 |
-
# Use unified model manager with optional quantization
|
| 1187 |
-
try:
|
| 1188 |
-
from ..utils.unified_model_manager import unified_model_manager as _unified_manager
|
| 1189 |
-
model = _unified_manager.get_model(
|
| 1190 |
-
name=model_name,
|
| 1191 |
-
model_type="summarization", # use summarization pipeline for seq2seq-style summarization
|
| 1192 |
-
filename=None
|
| 1193 |
-
)
|
| 1194 |
-
# Load the model if not already loaded
|
| 1195 |
-
if not model.load():
|
| 1196 |
-
raise Exception(f"Failed to load model {model_name}")
|
| 1197 |
-
pipeline = model
|
| 1198 |
-
except Exception as _e:
|
| 1199 |
-
print(f"Unified manager load failed for seq2seq, falling back: {_e}")
|
| 1200 |
-
pipeline = None
|
| 1201 |
else:
|
| 1202 |
-
# causal-openvino path
|
| 1203 |
loader = agents.get("medical_data_extractor")
|
| 1204 |
if not loader or getattr(loader, 'model_name', None) != model_name:
|
| 1205 |
from ..utils.model_loader_spaces import get_openvino_pipeline
|
| 1206 |
-
|
|
|
|
| 1207 |
else:
|
| 1208 |
-
|
|
|
|
| 1209 |
|
| 1210 |
-
if not
|
| 1211 |
error_msg = ERROR_MESSAGES["model_load_failed"]
|
| 1212 |
log_error_with_context(Exception(error_msg), "Model pipeline loading", job_id)
|
| 1213 |
try:
|
|
@@ -1217,236 +1529,132 @@ Generate a comprehensive patient summary based on the data.</s>
|
|
| 1217 |
update_job_with_error(job_id, error_msg, "model_load_failed")
|
| 1218 |
raise ValueError(error_msg)
|
| 1219 |
|
| 1220 |
-
# Monitor memory usage before generation
|
| 1221 |
monitor_memory_usage("text-generation model loading", job_id)
|
| 1222 |
|
| 1223 |
-
|
| 1224 |
-
|
| 1225 |
-
if custom_prompt and visit_data_text:
|
| 1226 |
-
# Format custom_prompt with visit data in the same structure as default prompt
|
| 1227 |
-
# Match the format from process_patient_record_plain_text
|
| 1228 |
-
prompt = f"""<|system|>
|
| 1229 |
-
You are a clinical assistant.
|
| 1230 |
-
|
| 1231 |
-
DATA:
|
| 1232 |
-
{visit_data_text}
|
| 1233 |
-
<|user|>
|
| 1234 |
-
{custom_prompt}
|
| 1235 |
-
<|assistant|>"""
|
| 1236 |
-
else:
|
| 1237 |
-
# Use plain text processing for better LLM understanding
|
| 1238 |
-
prompt = process_patient_record_plain_text({
|
| 1239 |
-
'visits': all_visits,
|
| 1240 |
-
'patient_info': "",
|
| 1241 |
-
'demographics': {
|
| 1242 |
-
'age': ehr_data.get('result', {}).get('agey', 'Unknown'),
|
| 1243 |
-
'gender': ehr_data.get('result', {}).get('gender', 'Unknown'),
|
| 1244 |
-
'patientName': ehr_data.get('result', {}).get('patientname', 'Unknown')
|
| 1245 |
-
}
|
| 1246 |
-
})
|
| 1247 |
-
inputs = pipeline.tokenizer([prompt], return_tensors="pt")
|
| 1248 |
-
from ..utils.unified_model_manager import unified_model_manager as _unified_manager
|
| 1249 |
|
| 1250 |
-
#
|
| 1251 |
actual_model_type = "text-generation" if model_type in {"text-generation", "causal-openvino"} else model_type
|
| 1252 |
-
|
| 1253 |
-
|
| 1254 |
-
|
| 1255 |
-
filename=None
|
| 1256 |
-
)
|
| 1257 |
-
if not model.load():
|
| 1258 |
raise RuntimeError("Model failed to load")
|
| 1259 |
-
|
| 1260 |
-
|
| 1261 |
-
|
| 1262 |
-
|
| 1263 |
-
|
| 1264 |
-
)
|
| 1265 |
-
raw_summary = await asyncio.to_thread(model.generate, prompt, config)
|
| 1266 |
try:
|
| 1267 |
log_with_memory(logging.INFO, f"[SUMMARY] text-gen generated request_id={request_id} chars={len(raw_summary)}")
|
| 1268 |
except Exception:
|
| 1269 |
pass
|
| 1270 |
|
| 1271 |
-
# Clean up memory after generation
|
| 1272 |
cleanup_memory()
|
| 1273 |
monitor_memory_usage("text-generation completion", job_id)
|
| 1274 |
|
| 1275 |
total_time = time.perf_counter() - start_time
|
| 1276 |
print(f"[✅ SUCCESS] Text-generation | TIMEOUT_MODE: {timeout_mode} | TOTAL: {total_time:.1f}s")
|
| 1277 |
-
|
| 1278 |
-
log_with_memory(logging.INFO, f"[SUMMARY] text-gen success request_id={request_id} total_s={total_time:.1f}")
|
| 1279 |
-
except Exception:
|
| 1280 |
-
pass
|
| 1281 |
|
| 1282 |
-
result =
|
| 1283 |
-
|
| 1284 |
-
"baseline": baseline,
|
| 1285 |
-
"delta": delta_text,
|
| 1286 |
-
"prompt": prompt,
|
| 1287 |
-
"timing": {"total": round(total_time, 1)},
|
| 1288 |
-
"model_used": f"{model_name} ({model_type})",
|
| 1289 |
-
"timeout_mode_used": timeout_mode
|
| 1290 |
-
}
|
| 1291 |
if job_id:
|
| 1292 |
update_job(job_id, 'completed', progress=100, data=result)
|
| 1293 |
return result
|
| 1294 |
|
| 1295 |
elif model_type == "summarization":
|
| 1296 |
-
# Similar logic for summarization
|
| 1297 |
print(f"📝 SUMMARIZATION MODE: {model_name}")
|
| 1298 |
if job_id:
|
| 1299 |
update_job(job_id, 'processing', progress=70, data={'message': 'Generating summary with summarization model...'})
|
| 1300 |
-
|
| 1301 |
-
|
| 1302 |
-
|
| 1303 |
-
|
| 1304 |
-
model_type="summarization",
|
| 1305 |
-
filename=None
|
| 1306 |
-
)
|
| 1307 |
-
# Load the model if not already loaded
|
| 1308 |
-
if not model.load():
|
| 1309 |
-
raise Exception(f"Failed to load model {model_name}")
|
| 1310 |
-
pipeline = model
|
| 1311 |
-
except Exception as _e:
|
| 1312 |
-
print(f"Unified manager load failed for summarization, falling back: {_e}")
|
| 1313 |
-
loader = agents.get("summarizer")
|
| 1314 |
-
from ..utils import model_config as _mc
|
| 1315 |
-
default_sum = _mc.get_default_model('summarization')
|
| 1316 |
-
pipeline = loader.model_loader.load() if hasattr(loader, "model_loader") else await asyncio.to_thread(get_summarizer_pipeline, "summarization", default_sum)
|
| 1317 |
-
|
| 1318 |
-
# Use custom_prompt if provided, otherwise use default context
|
| 1319 |
-
if custom_prompt and visit_data_text:
|
| 1320 |
-
# Format custom_prompt as instructions with visit data and baseline/delta
|
| 1321 |
-
# Summarization models expect a context string, not chat template format
|
| 1322 |
-
context = f"{custom_prompt}\n\nPatient Visit Data:\n{visit_data_text}\n\nBaseline: {baseline}\n\nChanges: {delta_text}\n\nGenerate a comprehensive patient summary based on the above information."
|
| 1323 |
-
else:
|
| 1324 |
-
context = f"Patient Data:\nBaseline: {baseline}\nChanges: {delta_text}"
|
| 1325 |
-
# Use proper generation config
|
| 1326 |
-
from ..utils.unified_model_manager import GenerationConfig
|
| 1327 |
-
config = GenerationConfig(
|
| 1328 |
-
max_tokens=_effective_max_new_tokens(data.get("max_new_tokens"), default=1024),
|
| 1329 |
-
min_tokens=100,
|
| 1330 |
-
temperature=0.1,
|
| 1331 |
-
top_p=0.5
|
| 1332 |
)
|
| 1333 |
-
|
| 1334 |
-
|
| 1335 |
-
|
| 1336 |
-
|
| 1337 |
-
|
| 1338 |
-
|
| 1339 |
-
|
| 1340 |
-
|
| 1341 |
-
|
| 1342 |
-
|
| 1343 |
-
|
| 1344 |
-
|
| 1345 |
-
|
| 1346 |
-
|
| 1347 |
-
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1348 |
|
| 1349 |
total_time = time.perf_counter() - start_time
|
| 1350 |
print(f"[✅ SUCCESS] Summarization | TIMEOUT_MODE: {timeout_mode} | TOTAL: {total_time:.1f}s")
|
| 1351 |
-
|
| 1352 |
-
log_with_memory(logging.INFO, f"[SUMMARY] summarization success request_id={request_id} total_s={total_time:.1f}")
|
| 1353 |
-
except Exception:
|
| 1354 |
-
pass
|
| 1355 |
|
| 1356 |
-
result =
|
| 1357 |
-
|
| 1358 |
-
"baseline": baseline,
|
| 1359 |
-
"delta": delta_text,
|
| 1360 |
-
"prompt": context,
|
| 1361 |
-
"timing": {"total": round(total_time, 1)},
|
| 1362 |
-
"model_used": f"{model_name} ({model_type})",
|
| 1363 |
-
"timeout_mode_used": timeout_mode
|
| 1364 |
-
}
|
| 1365 |
if job_id:
|
| 1366 |
update_job(job_id, 'completed', progress=100, data=result)
|
| 1367 |
return result
|
| 1368 |
|
| 1369 |
elif model_type == "seq2seq":
|
| 1370 |
-
# Handle seq2seq models via UnifiedModelManager to enable SINQ
|
| 1371 |
print(f"🔄 SEQ2SEQ MODE: {model_name}")
|
| 1372 |
if job_id:
|
| 1373 |
update_job(job_id, 'processing', progress=70, data={'message': 'Generating summary with seq2seq model...'})
|
|
|
|
| 1374 |
try:
|
| 1375 |
-
|
| 1376 |
-
model =
|
| 1377 |
-
|
| 1378 |
-
model_type=model_type, # use summarization pipeline for seq2seq-style summarization
|
| 1379 |
-
filename=None
|
| 1380 |
-
)
|
| 1381 |
-
# Load the model if not already loaded
|
| 1382 |
-
if not model.load():
|
| 1383 |
-
logger.warning(f"Seq2Seq model {model_name} failed to load, trying fallback...")
|
| 1384 |
-
# Try fallback with a working summarization model
|
| 1385 |
-
from ..utils import model_config as _mc
|
| 1386 |
-
fallback_model_name = _mc.get_default_model('summarization')
|
| 1387 |
-
logger.info(f"Using fallback model: {fallback_model_name}")
|
| 1388 |
-
|
| 1389 |
-
fallback_model = _unified_manager.get_model(
|
| 1390 |
-
name=fallback_model_name,
|
| 1391 |
-
model_type="summarization",
|
| 1392 |
-
filename=None
|
| 1393 |
-
)
|
| 1394 |
-
if not fallback_model.load():
|
| 1395 |
-
raise Exception(f"Both {model_name} and fallback {fallback_model_name} failed to load")
|
| 1396 |
-
seq2seq_pipeline = fallback_model
|
| 1397 |
-
else:
|
| 1398 |
-
seq2seq_pipeline = model
|
| 1399 |
-
context = f"Patient Data:\nBaseline: {baseline}\nChanges: {delta_text}"
|
| 1400 |
-
# Use proper generation config for seq2seq
|
| 1401 |
-
from ..utils.unified_model_manager import GenerationConfig
|
| 1402 |
-
config = GenerationConfig(
|
| 1403 |
-
max_tokens=_effective_max_new_tokens(data.get("max_new_tokens"), default=1024),
|
| 1404 |
-
min_tokens=100,
|
| 1405 |
-
temperature=0.1,
|
| 1406 |
-
top_p=0.5
|
| 1407 |
)
|
| 1408 |
-
|
| 1409 |
-
|
| 1410 |
-
|
| 1411 |
-
|
| 1412 |
-
|
| 1413 |
-
|
| 1414 |
-
|
| 1415 |
-
|
| 1416 |
-
|
| 1417 |
-
|
| 1418 |
-
|
| 1419 |
-
#
|
| 1420 |
-
|
|
|
|
|
|
|
|
|
|
| 1421 |
raw_summary = generate_rule_based_summary(baseline, delta_text, all_visits, patientid)
|
|
|
|
| 1422 |
total_time = time.perf_counter() - start_time
|
| 1423 |
print(f"[✅ SUCCESS] Seq2Seq | TIMEOUT_MODE: {timeout_mode} | TOTAL: {total_time:.1f}s")
|
| 1424 |
-
|
| 1425 |
-
|
| 1426 |
-
|
| 1427 |
-
|
| 1428 |
-
"prompt": context,
|
| 1429 |
-
"timing": {"total": round(total_time, 1)},
|
| 1430 |
-
"model_used": f"{model_name} ({model_type})",
|
| 1431 |
-
"timeout_mode_used": timeout_mode
|
| 1432 |
-
}
|
| 1433 |
if job_id:
|
| 1434 |
update_job(job_id, 'completed', progress=100, data=result)
|
| 1435 |
return result
|
| 1436 |
except Exception as e:
|
| 1437 |
print(f"Seq2Seq model failed: {e}")
|
| 1438 |
# Fallback to rule-based
|
| 1439 |
-
|
| 1440 |
total_time = time.perf_counter() - start_time
|
| 1441 |
-
result =
|
| 1442 |
-
|
| 1443 |
-
|
| 1444 |
-
|
| 1445 |
-
"warning": f"Seq2Seq model failed, used rule-based fallback: {str(e)}",
|
| 1446 |
-
"timing": {"total": round(total_time, 1)},
|
| 1447 |
-
"model_used": f"{model_name} ({model_type}) - fallback",
|
| 1448 |
-
"timeout_mode_used": timeout_mode
|
| 1449 |
-
}
|
| 1450 |
if job_id:
|
| 1451 |
update_job(job_id, 'completed', progress=100, data=result)
|
| 1452 |
return result
|
|
@@ -1458,75 +1666,46 @@ DATA:
|
|
| 1458 |
update_job(job_id, 'processing', progress=70, data={'message': f'Loading universal model: {model_name} ({model_type})'})
|
| 1459 |
|
| 1460 |
try:
|
| 1461 |
-
#
|
| 1462 |
-
|
| 1463 |
-
|
| 1464 |
-
name=model_name,
|
| 1465 |
-
model_type=model_type,
|
| 1466 |
-
filename=None
|
| 1467 |
)
|
| 1468 |
-
|
| 1469 |
-
if not model
|
| 1470 |
-
|
| 1471 |
-
# Try fallback with a working summarization model
|
| 1472 |
-
from ..utils import model_config as _mc
|
| 1473 |
-
fallback_model_name = _mc.get_default_model('summarization')
|
| 1474 |
-
logger.info(f"Using fallback model: {fallback_model_name}")
|
| 1475 |
-
|
| 1476 |
-
fallback_model = _unified_manager.get_model(
|
| 1477 |
-
name=fallback_model_name,
|
| 1478 |
-
model_type="summarization",
|
| 1479 |
-
filename=None
|
| 1480 |
-
)
|
| 1481 |
-
if not fallback_model.load():
|
| 1482 |
-
raise Exception(f"Both {model_name} and fallback {fallback_model_name} failed to load")
|
| 1483 |
-
pipeline = fallback_model
|
| 1484 |
-
else:
|
| 1485 |
-
pipeline = model
|
| 1486 |
|
| 1487 |
if job_id:
|
| 1488 |
update_job(job_id, 'processing', progress=80, data={'message': f'Generating summary with {model_type} model...'})
|
| 1489 |
|
| 1490 |
-
#
|
| 1491 |
-
|
| 1492 |
-
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1493 |
raw_summary = await asyncio.wait_for(
|
| 1494 |
asyncio.to_thread(
|
| 1495 |
-
|
| 1496 |
prompt,
|
| 1497 |
max_tokens=_effective_max_new_tokens(data.get("max_new_tokens"), default=1024),
|
| 1498 |
temperature=0.1,
|
| 1499 |
top_p=0.5,
|
| 1500 |
),
|
| 1501 |
-
timeout=300
|
| 1502 |
-
)
|
| 1503 |
-
elif hasattr(pipeline, '__call__'):
|
| 1504 |
-
# For transformers pipelines - use proper generation config
|
| 1505 |
-
from ..utils.unified_model_manager import GenerationConfig
|
| 1506 |
-
config = GenerationConfig(
|
| 1507 |
-
max_tokens=8192,
|
| 1508 |
-
min_tokens=100,
|
| 1509 |
-
temperature=0.1,
|
| 1510 |
-
top_p=0.5
|
| 1511 |
)
|
| 1512 |
-
result = await asyncio.to_thread(pipeline.generate, prompt, config)
|
| 1513 |
-
raw_summary = result
|
| 1514 |
else:
|
| 1515 |
-
|
|
|
|
|
|
|
| 1516 |
|
| 1517 |
-
# Return raw summary without formatting
|
| 1518 |
total_time = time.perf_counter() - start_time
|
| 1519 |
print(f"[✅ SUCCESS] Universal {model_type} | TIMEOUT_MODE: {timeout_mode} | TOTAL: {total_time:.1f}s")
|
|
|
|
| 1520 |
|
| 1521 |
-
result =
|
| 1522 |
-
|
| 1523 |
-
"baseline": baseline,
|
| 1524 |
-
"delta": delta_text,
|
| 1525 |
-
"prompt": prompt,
|
| 1526 |
-
"timing": {"total": round(total_time, 1)},
|
| 1527 |
-
"model_used": f"{model_name} ({model_type})",
|
| 1528 |
-
"timeout_mode_used": timeout_mode
|
| 1529 |
-
}
|
| 1530 |
if job_id:
|
| 1531 |
update_job(job_id, 'completed', progress=100, data=result)
|
| 1532 |
return result
|
|
@@ -1534,17 +1713,12 @@ DATA:
|
|
| 1534 |
except Exception as e:
|
| 1535 |
print(f"Universal model handling failed: {e}")
|
| 1536 |
# Fallback to rule-based generation
|
| 1537 |
-
|
| 1538 |
total_time = time.perf_counter() - start_time
|
| 1539 |
-
result =
|
| 1540 |
-
|
| 1541 |
-
|
| 1542 |
-
|
| 1543 |
-
"warning": f"Model {model_name} ({model_type}) failed, used rule-based fallback: {str(e)}",
|
| 1544 |
-
"timing": {"total": round(total_time, 1)},
|
| 1545 |
-
"model_used": f"{model_name} ({model_type}) - fallback",
|
| 1546 |
-
"timeout_mode_used": timeout_mode
|
| 1547 |
-
}
|
| 1548 |
if job_id:
|
| 1549 |
update_job(job_id, 'completed', progress=100, data=result)
|
| 1550 |
return result
|
|
|
|
| 15 |
logger = logging.getLogger(__name__)
|
| 16 |
from concurrent.futures import ThreadPoolExecutor, as_completed
|
| 17 |
import torch
|
| 18 |
+
from transformers import AutoTokenizer, AutoModelForCausalLM, pipeline as transformers_pipeline
|
| 19 |
import requests
|
| 20 |
import re
|
| 21 |
import psutil
|
|
|
|
| 27 |
|
| 28 |
from ..utils.file_utils import allowed_file, check_file_size, get_data_from_storage, save_data_to_storage
|
| 29 |
from ..utils.unified_model_manager import unified_model_manager, GenerationConfig
|
| 30 |
+
from ..utils.constants import (
|
| 31 |
+
TIMEOUT_CONFIG, CACHE_CONFIG, ERROR_MESSAGES,
|
| 32 |
+
get_timeout_config, get_cache_config
|
| 33 |
+
)
|
| 34 |
+
from ..utils.common_helpers import (
|
| 35 |
+
extract_text_from_pipeline_result, validate_required_fields,
|
| 36 |
+
is_error_response, create_error_dict, merge_config
|
| 37 |
+
)
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 38 |
|
| 39 |
router = APIRouter()
|
| 40 |
GGUF_MODEL_CACHE = {}
|
|
|
|
| 150 |
try:
|
| 151 |
# Force garbage collection
|
| 152 |
gc.collect()
|
| 153 |
+
|
| 154 |
# Clear PyTorch cache if available
|
| 155 |
if torch.cuda.is_available():
|
| 156 |
torch.cuda.empty_cache()
|
| 157 |
+
|
| 158 |
# Clean up global caches to prevent memory leaks
|
| 159 |
cleanup_global_caches()
|
| 160 |
+
|
| 161 |
# Log memory usage for monitoring
|
| 162 |
memory_info = psutil.virtual_memory()
|
| 163 |
logging.info(f"Memory cleanup completed. Available memory: {memory_info.available / 1024 / 1024 / 1024:.2f} GB")
|
| 164 |
+
|
| 165 |
except Exception as e:
|
| 166 |
logging.warning(f"Memory cleanup failed: {str(e)}")
|
| 167 |
|
| 168 |
+
# ========== CHUNKING AND BATCH PROCESSING HELPERS ==========
|
| 169 |
+
|
| 170 |
+
def chunk_visits_by_date(visits, chunk_size_days=90):
|
| 171 |
+
"""
|
| 172 |
+
Chunk visits into groups based on date ranges.
|
| 173 |
+
|
| 174 |
+
Args:
|
| 175 |
+
visits: List of visit dictionaries with date information
|
| 176 |
+
chunk_size_days: Number of days per chunk
|
| 177 |
+
|
| 178 |
+
Returns:
|
| 179 |
+
List of visit chunks
|
| 180 |
+
"""
|
| 181 |
+
if not visits:
|
| 182 |
+
return []
|
| 183 |
+
|
| 184 |
+
# Sort visits by date
|
| 185 |
+
sorted_visits = sorted(visits, key=lambda x: x.get('visitdate', ''))
|
| 186 |
+
|
| 187 |
+
chunks = []
|
| 188 |
+
current_chunk = []
|
| 189 |
+
current_start_date = None
|
| 190 |
+
|
| 191 |
+
for visit in sorted_visits:
|
| 192 |
+
visit_date_str = visit.get('visitdate', '')
|
| 193 |
+
if not visit_date_str:
|
| 194 |
+
continue
|
| 195 |
+
|
| 196 |
+
try:
|
| 197 |
+
# Parse date (assuming format like 'YYYY-MM-DD' or similar)
|
| 198 |
+
from datetime import datetime
|
| 199 |
+
visit_date = datetime.strptime(visit_date_str.split(' ')[0], '%Y-%m-%d')
|
| 200 |
+
except (ValueError, IndexError):
|
| 201 |
+
# If date parsing fails, add to current chunk
|
| 202 |
+
current_chunk.append(visit)
|
| 203 |
+
continue
|
| 204 |
+
|
| 205 |
+
if current_start_date is None:
|
| 206 |
+
current_start_date = visit_date
|
| 207 |
+
current_chunk = [visit]
|
| 208 |
+
else:
|
| 209 |
+
days_diff = (visit_date - current_start_date).days
|
| 210 |
+
if days_diff <= chunk_size_days:
|
| 211 |
+
current_chunk.append(visit)
|
| 212 |
+
else:
|
| 213 |
+
# Start new chunk
|
| 214 |
+
if current_chunk:
|
| 215 |
+
chunks.append(current_chunk)
|
| 216 |
+
current_chunk = [visit]
|
| 217 |
+
current_start_date = visit_date
|
| 218 |
+
|
| 219 |
+
# Add final chunk
|
| 220 |
+
if current_chunk:
|
| 221 |
+
chunks.append(current_chunk)
|
| 222 |
+
|
| 223 |
+
return chunks
|
| 224 |
+
|
| 225 |
+
def chunk_visits_by_size(visits, max_chunk_size=50):
|
| 226 |
+
"""
|
| 227 |
+
Chunk visits into groups based on maximum size per chunk.
|
| 228 |
+
|
| 229 |
+
Args:
|
| 230 |
+
visits: List of visit dictionaries
|
| 231 |
+
max_chunk_size: Maximum number of visits per chunk
|
| 232 |
+
|
| 233 |
+
Returns:
|
| 234 |
+
List of visit chunks
|
| 235 |
+
"""
|
| 236 |
+
if not visits:
|
| 237 |
+
return []
|
| 238 |
+
|
| 239 |
+
chunks = []
|
| 240 |
+
for i in range(0, len(visits), max_chunk_size):
|
| 241 |
+
chunk = visits[i:i + max_chunk_size]
|
| 242 |
+
chunks.append(chunk)
|
| 243 |
+
|
| 244 |
+
return chunks
|
| 245 |
+
|
| 246 |
+
def should_use_chunking(visits, data_size_threshold=50000):
|
| 247 |
+
"""
|
| 248 |
+
Determine if chunking should be used based on data size.
|
| 249 |
+
|
| 250 |
+
Args:
|
| 251 |
+
visits: List of visits
|
| 252 |
+
data_size_threshold: Minimum data size to trigger chunking (in characters)
|
| 253 |
+
|
| 254 |
+
Returns:
|
| 255 |
+
Boolean indicating if chunking should be used
|
| 256 |
+
"""
|
| 257 |
+
if not visits:
|
| 258 |
+
return False
|
| 259 |
+
|
| 260 |
+
# Estimate data size
|
| 261 |
+
data_size = len(str(visits))
|
| 262 |
+
visit_count = len(visits)
|
| 263 |
+
|
| 264 |
+
# Use chunking if data is large or has many visits
|
| 265 |
+
return data_size > data_size_threshold or visit_count > 100
|
| 266 |
+
|
| 267 |
+
def process_visit_chunk(chunk_visits, patient_info, model_name, model_type, generation_config, job_id=None):
|
| 268 |
+
"""
|
| 269 |
+
Process a single chunk of visits and generate a partial summary.
|
| 270 |
+
|
| 271 |
+
Args:
|
| 272 |
+
chunk_visits: List of visits in this chunk
|
| 273 |
+
patient_info: Patient demographic information
|
| 274 |
+
model_name: Name of the model to use
|
| 275 |
+
model_type: Type of the model
|
| 276 |
+
generation_config: Generation configuration
|
| 277 |
+
job_id: Optional job ID for progress tracking
|
| 278 |
+
|
| 279 |
+
Returns:
|
| 280 |
+
Dictionary with partial summary results
|
| 281 |
+
"""
|
| 282 |
+
try:
|
| 283 |
+
# Import required utilities
|
| 284 |
+
from ..utils.openvino_summarizer_utils import compute_deltas, build_compact_baseline, delta_to_text
|
| 285 |
+
|
| 286 |
+
# Compute deltas and baseline for this chunk
|
| 287 |
+
delta = compute_deltas([], chunk_visits)
|
| 288 |
+
baseline = build_compact_baseline(chunk_visits)
|
| 289 |
+
delta_text = delta_to_text(delta)
|
| 290 |
+
|
| 291 |
+
# Build prompt for this chunk
|
| 292 |
+
if model_type == "text-generation":
|
| 293 |
+
prompt = build_text_generation_prompt(None, "", chunk_visits, patient_info)
|
| 294 |
+
elif model_type == "summarization":
|
| 295 |
+
prompt = build_summarization_context(None, "", baseline, delta_text)
|
| 296 |
+
else:
|
| 297 |
+
# Default to text generation
|
| 298 |
+
prompt = build_text_generation_prompt(None, "", chunk_visits, patient_info)
|
| 299 |
+
|
| 300 |
+
# Generate summary for this chunk
|
| 301 |
+
from ..utils.unified_model_manager import unified_model_manager
|
| 302 |
+
model = unified_model_manager.get_model(name=model_name, model_type=model_type, filename=None)
|
| 303 |
+
if not model.load():
|
| 304 |
+
raise RuntimeError(f"Failed to load model {model_name}")
|
| 305 |
+
|
| 306 |
+
raw_summary = model.generate(prompt, generation_config)
|
| 307 |
+
|
| 308 |
+
# Clean up memory after processing chunk
|
| 309 |
+
cleanup_memory()
|
| 310 |
+
|
| 311 |
+
return {
|
| 312 |
+
"baseline": baseline,
|
| 313 |
+
"delta": delta_text,
|
| 314 |
+
"summary": raw_summary,
|
| 315 |
+
"prompt": prompt,
|
| 316 |
+
"visit_count": len(chunk_visits),
|
| 317 |
+
"success": True
|
| 318 |
+
}
|
| 319 |
+
|
| 320 |
+
except Exception as e:
|
| 321 |
+
logging.error(f"Error processing visit chunk: {str(e)}")
|
| 322 |
+
return {
|
| 323 |
+
"error": str(e),
|
| 324 |
+
"visit_count": len(chunk_visits),
|
| 325 |
+
"success": False
|
| 326 |
+
}
|
| 327 |
+
|
| 328 |
+
async def process_visit_chunks_async(chunks, patient_info, model_name, model_type, generation_config, job_id=None, max_concurrent=2):
|
| 329 |
+
"""
|
| 330 |
+
Process multiple visit chunks asynchronously with concurrency control.
|
| 331 |
+
|
| 332 |
+
Args:
|
| 333 |
+
chunks: List of visit chunks
|
| 334 |
+
patient_info: Patient demographic information
|
| 335 |
+
model_name: Name of the model to use
|
| 336 |
+
model_type: Type of the model
|
| 337 |
+
generation_config: Generation configuration
|
| 338 |
+
job_id: Optional job ID for progress tracking
|
| 339 |
+
max_concurrent: Maximum number of concurrent chunk processing
|
| 340 |
+
|
| 341 |
+
Returns:
|
| 342 |
+
List of chunk processing results
|
| 343 |
+
"""
|
| 344 |
+
import asyncio
|
| 345 |
+
from concurrent.futures import ThreadPoolExecutor
|
| 346 |
+
|
| 347 |
+
semaphore = asyncio.Semaphore(max_concurrent)
|
| 348 |
+
results = []
|
| 349 |
+
|
| 350 |
+
async def process_single_chunk(chunk_idx, chunk):
|
| 351 |
+
async with semaphore:
|
| 352 |
+
if job_id:
|
| 353 |
+
update_job(job_id, 'processing', progress=60 + (chunk_idx * 10) // len(chunks),
|
| 354 |
+
data={'message': f'Processing chunk {chunk_idx + 1}/{len(chunks)}'})
|
| 355 |
+
|
| 356 |
+
loop = asyncio.get_event_loop()
|
| 357 |
+
with ThreadPoolExecutor() as executor:
|
| 358 |
+
result = await loop.run_in_executor(
|
| 359 |
+
executor,
|
| 360 |
+
process_visit_chunk,
|
| 361 |
+
chunk,
|
| 362 |
+
patient_info,
|
| 363 |
+
model_name,
|
| 364 |
+
model_type,
|
| 365 |
+
generation_config,
|
| 366 |
+
job_id
|
| 367 |
+
)
|
| 368 |
+
results.append(result)
|
| 369 |
+
|
| 370 |
+
# Process chunks concurrently
|
| 371 |
+
tasks = [process_single_chunk(i, chunk) for i, chunk in enumerate(chunks)]
|
| 372 |
+
await asyncio.gather(*tasks)
|
| 373 |
+
|
| 374 |
+
return results
|
| 375 |
+
|
| 376 |
+
def combine_chunk_summaries(chunk_results, patient_info):
|
| 377 |
+
"""
|
| 378 |
+
Combine partial summaries from chunks into a cohesive final summary.
|
| 379 |
+
|
| 380 |
+
Args:
|
| 381 |
+
chunk_results: List of chunk processing results
|
| 382 |
+
patient_info: Patient demographic information
|
| 383 |
+
|
| 384 |
+
Returns:
|
| 385 |
+
Combined summary string
|
| 386 |
+
"""
|
| 387 |
+
successful_chunks = [r for r in chunk_results if r.get('success', False)]
|
| 388 |
+
|
| 389 |
+
if not successful_chunks:
|
| 390 |
+
return "Unable to generate summary from any data chunks."
|
| 391 |
+
|
| 392 |
+
# Extract components
|
| 393 |
+
all_baselines = [r['baseline'] for r in successful_chunks]
|
| 394 |
+
all_deltas = [r['delta'] for r in successful_chunks]
|
| 395 |
+
all_summaries = [r['summary'] for r in successful_chunks]
|
| 396 |
+
|
| 397 |
+
# Combine baselines (take the earliest comprehensive baseline)
|
| 398 |
+
combined_baseline = all_baselines[0] if all_baselines else "No baseline data available"
|
| 399 |
+
|
| 400 |
+
# Combine deltas
|
| 401 |
+
combined_delta = "\n\n".join([f"Period {i+1}: {delta}" for i, delta in enumerate(all_deltas)])
|
| 402 |
+
|
| 403 |
+
# Create a meta-summary that synthesizes all chunk summaries
|
| 404 |
+
meta_prompt = f"""
|
| 405 |
+
Patient Information: {patient_info}
|
| 406 |
+
|
| 407 |
+
Individual Period Summaries:
|
| 408 |
+
{"".join([f"Period {i+1}: {summary}" for i, summary in enumerate(all_summaries)])}
|
| 409 |
+
|
| 410 |
+
Please create a comprehensive clinical summary that synthesizes all the above period summaries into a cohesive narrative.
|
| 411 |
+
Focus on:
|
| 412 |
+
1. Overall patient trajectory
|
| 413 |
+
2. Key clinical trends and changes
|
| 414 |
+
3. Important diagnoses and treatments
|
| 415 |
+
4. Current status and recommendations
|
| 416 |
+
|
| 417 |
+
Provide the summary in markdown format with clear sections.
|
| 418 |
+
"""
|
| 419 |
+
|
| 420 |
+
# Use a simple rule-based combination if no model is available for meta-summary
|
| 421 |
+
combined_summary = f"""# Comprehensive Patient Summary
|
| 422 |
+
|
| 423 |
+
## Patient Information
|
| 424 |
+
{patient_info}
|
| 425 |
+
|
| 426 |
+
## Clinical Overview
|
| 427 |
+
{combined_baseline}
|
| 428 |
+
|
| 429 |
+
## Key Changes Over Time
|
| 430 |
+
{combined_delta}
|
| 431 |
+
|
| 432 |
+
## Detailed Period Analysis
|
| 433 |
+
"""
|
| 434 |
+
|
| 435 |
+
for i, summary in enumerate(all_summaries):
|
| 436 |
+
combined_summary += f"\n### Period {i+1}\n{summary}\n"
|
| 437 |
+
|
| 438 |
+
return combined_summary
|
| 439 |
+
|
| 440 |
def cleanup_global_caches():
|
| 441 |
"""
|
| 442 |
Clean up global caches to prevent memory leaks.
|
|
|
|
| 988 |
# If no clinical content found, return the entire summary
|
| 989 |
return '\n'.join(out).strip()
|
| 990 |
|
| 991 |
+
# ========== HELPER FUNCTIONS FOR MODEL GENERATION ==========
|
| 992 |
+
|
| 993 |
+
def extract_text_from_pipeline_result(result):
|
| 994 |
+
"""Extract text from pipeline result (handles different output formats)."""
|
| 995 |
+
if isinstance(result, list) and result and isinstance(result[0], dict):
|
| 996 |
+
if "summary_text" in result[0]:
|
| 997 |
+
return result[0]["summary_text"]
|
| 998 |
+
elif "generated_text" in result[0]:
|
| 999 |
+
return result[0]["generated_text"]
|
| 1000 |
+
if result is None:
|
| 1001 |
+
return None
|
| 1002 |
+
return str(result)
|
| 1003 |
+
|
| 1004 |
+
def build_result_dict(raw_summary, baseline, delta_text, prompt, model_name, model_type,
|
| 1005 |
+
timeout_mode, start_time, t_api_start=None, t_api_end=None):
|
| 1006 |
+
"""Build standardized result dictionary for all model types."""
|
| 1007 |
+
total_time = time.perf_counter() - start_time
|
| 1008 |
+
timing = {"total": round(total_time, 1)}
|
| 1009 |
+
|
| 1010 |
+
if t_api_start is not None and t_api_end is not None:
|
| 1011 |
+
timing.update({
|
| 1012 |
+
"ehr_api": round(t_api_end - t_api_start, 1),
|
| 1013 |
+
"generation": round(total_time - (t_api_end - t_api_start), 1)
|
| 1014 |
+
})
|
| 1015 |
+
|
| 1016 |
+
return {
|
| 1017 |
+
"summary": raw_summary,
|
| 1018 |
+
"baseline": baseline,
|
| 1019 |
+
"delta": delta_text,
|
| 1020 |
+
"prompt": prompt,
|
| 1021 |
+
"timing": timing,
|
| 1022 |
+
"model_used": f"{model_name} ({model_type})",
|
| 1023 |
+
"timeout_mode_used": timeout_mode
|
| 1024 |
+
}
|
| 1025 |
+
|
| 1026 |
+
def log_success(request_id, model_type, total_time):
|
| 1027 |
+
"""Log success message with consistent format."""
|
| 1028 |
+
try:
|
| 1029 |
+
log_with_memory(logging.INFO, f"[SUMMARY] {model_type} success request_id={request_id} total_s={total_time:.1f}")
|
| 1030 |
+
except Exception:
|
| 1031 |
+
pass
|
| 1032 |
+
|
| 1033 |
+
def build_gguf_prompt(custom_prompt, visit_data_text, all_visits, ehr_data):
|
| 1034 |
+
"""Build prompt for GGUF models."""
|
| 1035 |
+
from ..utils.openvino_summarizer_utils import process_patient_record_plain_text
|
| 1036 |
+
|
| 1037 |
+
if custom_prompt and visit_data_text:
|
| 1038 |
+
return f"""<|system|>
|
| 1039 |
+
You are a clinical assistant. {custom_prompt}
|
| 1040 |
+
|
| 1041 |
+
PATIENT VISIT DATA:
|
| 1042 |
+
{visit_data_text}</s>
|
| 1043 |
+
<|user|>
|
| 1044 |
+
Generate a comprehensive patient summary based on the data above.</s>
|
| 1045 |
+
<|assistant|>"""
|
| 1046 |
+
else:
|
| 1047 |
+
base_prompt = process_patient_record_plain_text({
|
| 1048 |
+
'visits': all_visits,
|
| 1049 |
+
'patient_info': "",
|
| 1050 |
+
'demographics': {
|
| 1051 |
+
'age': ehr_data.get('result', {}).get('agey', 'Unknown'),
|
| 1052 |
+
'gender': ehr_data.get('result', {}).get('gender', 'Unknown'),
|
| 1053 |
+
'patientName': ehr_data.get('result', {}).get('patientname', 'Unknown')
|
| 1054 |
+
}
|
| 1055 |
+
})
|
| 1056 |
+
return f"""<|system|>
|
| 1057 |
+
{base_prompt}</s>
|
| 1058 |
+
<|user|>
|
| 1059 |
+
Generate a comprehensive patient summary based on the data.</s>
|
| 1060 |
+
<|assistant|>"""
|
| 1061 |
+
|
| 1062 |
+
def build_text_generation_prompt(custom_prompt, visit_data_text, all_visits, ehr_data):
|
| 1063 |
+
"""Build prompt for text-generation models."""
|
| 1064 |
+
from ..utils.openvino_summarizer_utils import process_patient_record_plain_text
|
| 1065 |
+
|
| 1066 |
+
if custom_prompt and visit_data_text:
|
| 1067 |
+
return f"""<|system|>
|
| 1068 |
+
You are a clinical assistant.
|
| 1069 |
+
|
| 1070 |
+
DATA:
|
| 1071 |
+
{visit_data_text}
|
| 1072 |
+
<|user|>
|
| 1073 |
+
{custom_prompt}
|
| 1074 |
+
<|assistant|>"""
|
| 1075 |
+
else:
|
| 1076 |
+
return process_patient_record_plain_text({
|
| 1077 |
+
'visits': all_visits,
|
| 1078 |
+
'patient_info': "",
|
| 1079 |
+
'demographics': {
|
| 1080 |
+
'age': ehr_data.get('result', {}).get('agey', 'Unknown'),
|
| 1081 |
+
'gender': ehr_data.get('result', {}).get('gender', 'Unknown'),
|
| 1082 |
+
'patientName': ehr_data.get('result', {}).get('patientname', 'Unknown')
|
| 1083 |
+
}
|
| 1084 |
+
})
|
| 1085 |
+
|
| 1086 |
+
def build_summarization_context(custom_prompt, visit_data_text, baseline, delta_text):
|
| 1087 |
+
"""Build context for summarization models."""
|
| 1088 |
+
if custom_prompt and visit_data_text:
|
| 1089 |
+
return f"{custom_prompt}\n\nPatient Visit Data:\n{visit_data_text}\n\nBaseline: {baseline}\n\nChanges: {delta_text}\n\nGenerate a comprehensive patient summary based on the above information."
|
| 1090 |
+
else:
|
| 1091 |
+
return f"Patient Data:\nBaseline: {baseline}\nChanges: {delta_text}"
|
| 1092 |
+
|
| 1093 |
+
async def load_model_with_fallback(model_name, model_type, fallback_type=None):
|
| 1094 |
+
"""Load model with automatic fallback to default if loading fails."""
|
| 1095 |
+
from ..utils.unified_model_manager import unified_model_manager as _unified_manager
|
| 1096 |
+
from ..utils import model_config as _mc
|
| 1097 |
+
|
| 1098 |
+
try:
|
| 1099 |
+
model = _unified_manager.get_model(
|
| 1100 |
+
name=model_name,
|
| 1101 |
+
model_type=model_type,
|
| 1102 |
+
filename=None
|
| 1103 |
+
)
|
| 1104 |
+
if model.load():
|
| 1105 |
+
return model, model_name, model_type
|
| 1106 |
+
except Exception as e:
|
| 1107 |
+
logger.warning(f"Model {model_name} ({model_type}) failed to load: {e}")
|
| 1108 |
+
|
| 1109 |
+
# Try fallback
|
| 1110 |
+
if fallback_type:
|
| 1111 |
+
fallback_model_name = _mc.get_default_model(fallback_type)
|
| 1112 |
+
logger.info(f"Using fallback model: {fallback_model_name}")
|
| 1113 |
+
try:
|
| 1114 |
+
fallback_model = _unified_manager.get_model(
|
| 1115 |
+
name=fallback_model_name,
|
| 1116 |
+
model_type=fallback_type,
|
| 1117 |
+
filename=None
|
| 1118 |
+
)
|
| 1119 |
+
if fallback_model.load():
|
| 1120 |
+
return fallback_model, fallback_model_name, fallback_type
|
| 1121 |
+
except Exception as e:
|
| 1122 |
+
logger.error(f"Fallback model also failed: {e}")
|
| 1123 |
+
|
| 1124 |
+
return None, None, None
|
| 1125 |
+
|
| 1126 |
+
def create_generation_config(data, min_tokens=100, temperature=0.1, top_p=0.5):
|
| 1127 |
+
"""Create GenerationConfig with standardized parameters."""
|
| 1128 |
+
from ..utils.unified_model_manager import GenerationConfig
|
| 1129 |
+
return GenerationConfig(
|
| 1130 |
+
max_tokens=_effective_max_new_tokens(data.get("max_new_tokens"), default=1024),
|
| 1131 |
+
min_tokens=min_tokens,
|
| 1132 |
+
temperature=temperature,
|
| 1133 |
+
top_p=top_p
|
| 1134 |
+
)
|
| 1135 |
+
|
| 1136 |
async def async_patient_summary(data, job_id=None):
|
| 1137 |
"""
|
| 1138 |
Async implementation of patient summary generation, ported from Flask background_patient_summary.
|
|
|
|
| 1151 |
update_job(job_id, 'started', progress=5, data={'message': 'Task started'})
|
| 1152 |
|
| 1153 |
# Checksum-based caching using standardized configuration
|
| 1154 |
+
cache_config = get_cache_config()
|
| 1155 |
checksum = hashlib.md5(json.dumps(data, sort_keys=True).encode()).hexdigest()
|
| 1156 |
+
cache_dir = cache_config["cache_dir"]
|
| 1157 |
os.makedirs(cache_dir, exist_ok=True)
|
| 1158 |
cache_file = os.path.join(cache_dir, f"{checksum}.json")
|
| 1159 |
+
ttl = cache_config["ttl_seconds"]
|
| 1160 |
|
| 1161 |
if os.path.exists(cache_file):
|
| 1162 |
try:
|
|
|
|
| 1308 |
except Exception:
|
| 1309 |
pass
|
| 1310 |
|
| 1311 |
+
# Step 3.5: Check if chunking is needed for large datasets
|
| 1312 |
+
data_size = len(str(all_visits))
|
| 1313 |
+
visit_count = len(all_visits)
|
| 1314 |
+
use_chunking = should_use_chunking(all_visits, data_size_threshold=50000)
|
| 1315 |
+
|
| 1316 |
+
if use_chunking:
|
| 1317 |
+
print(f"📊 Large dataset detected ({data_size} chars, {visit_count} visits) - using chunking")
|
| 1318 |
+
try:
|
| 1319 |
+
log_with_memory(logging.INFO, f"[CHUNKING] Using chunking for large dataset: {data_size} chars, {visit_count} visits")
|
| 1320 |
+
except Exception:
|
| 1321 |
+
pass
|
| 1322 |
+
# Use chunking for large datasets
|
| 1323 |
+
chunks = chunk_visits_by_size(all_visits, max_chunk_size=50) # Process 50 visits per chunk
|
| 1324 |
+
print(f"📦 Split into {len(chunks)} chunks")
|
| 1325 |
+
|
| 1326 |
+
# Update progress for chunked processing
|
| 1327 |
+
if job_id:
|
| 1328 |
+
update_job(job_id, 'chunking_data', progress=55, data={'message': f'Processing {len(chunks)} data chunks...'})
|
| 1329 |
+
else:
|
| 1330 |
+
chunks = None
|
| 1331 |
+
print(f"📊 Small dataset ({data_size} chars, {visit_count} visits) - processing all at once")
|
| 1332 |
+
|
| 1333 |
from ..utils import model_config as _mc
|
| 1334 |
model_type = data.get("patient_summarizer_model_type") or "text-generation"
|
| 1335 |
model_name = data.get("patient_summarizer_model_name") or _mc.get_default_model(model_type)
|
|
|
|
| 1426 |
print(f"🔄 Loading new GGUF pipeline for {cache_key}")
|
| 1427 |
pipeline = await asyncio.to_thread(get_cached_gguf_pipeline, repo_id, filename)
|
| 1428 |
|
| 1429 |
+
# Build prompt using helper
|
| 1430 |
+
full_prompt = build_gguf_prompt(custom_prompt, visit_data_text, all_visits, ehr_data)
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1431 |
|
| 1432 |
if job_id:
|
| 1433 |
update_job(job_id, 'processing', progress=70, data={'message': '🧠 GGUF Model Loading: Initializing model pipeline...'})
|
| 1434 |
|
| 1435 |
try:
|
|
|
|
| 1436 |
if job_id:
|
| 1437 |
update_job(job_id, 'processing', progress=75, data={'message': '📦 GGUF Model Loading: Downloading model files...'})
|
| 1438 |
|
| 1439 |
# Use extended timeout for GGUF operations on HF Spaces
|
| 1440 |
is_hf_spaces = os.environ.get('HF_SPACES', 'false').lower() == 'true'
|
| 1441 |
+
timeout_value = timeout_config.get("gguf_extended_timeout" if is_hf_spaces else "gguf_timeout", 600)
|
|
|
|
|
|
|
|
|
|
| 1442 |
|
|
|
|
| 1443 |
if job_id:
|
| 1444 |
update_job(job_id, 'processing', progress=80, data={'message': '🚀 GGUF Model Ready: Starting text generation...'})
|
| 1445 |
|
|
|
|
| 1485 |
|
| 1486 |
total_time = time.perf_counter() - start_time
|
| 1487 |
print(f"[✅ SUCCESS] GGUF | TIMEOUT_MODE: {timeout_mode} | TOTAL: {total_time:.1f}s")
|
| 1488 |
+
log_success(request_id, "gguf", total_time)
|
|
|
|
|
|
|
|
|
|
| 1489 |
|
| 1490 |
update_performance_metrics(total_time - (t_api_end - t_api_start), success=True, cache_hit=(cache_key in GGUF_PIPELINE_CACHE))
|
| 1491 |
cleanup_memory()
|
| 1492 |
|
| 1493 |
+
result = build_result_dict(raw_summary, baseline, delta_text, full_prompt, model_name,
|
| 1494 |
+
model_type, timeout_mode, start_time, t_api_start, t_api_end)
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1495 |
if job_id:
|
| 1496 |
update_job(job_id, 'completed', progress=100, data=result)
|
| 1497 |
return result
|
| 1498 |
|
| 1499 |
elif model_type in {"text-generation", "causal-openvino"}:
|
|
|
|
| 1500 |
print(f"🔤 TEXT-GENERATION MODE: {model_name}")
|
| 1501 |
if job_id:
|
| 1502 |
update_job(job_id, 'processing', progress=70, data={'message': 'Generating summary with text-generation model...'})
|
| 1503 |
+
|
| 1504 |
+
# Load model with fallback
|
| 1505 |
if model_type == "text-generation":
|
| 1506 |
+
model, actual_model_name, actual_model_type = await load_model_with_fallback(
|
| 1507 |
+
model_name, "text-generation", fallback_type="summarization"
|
| 1508 |
+
)
|
| 1509 |
+
if not model:
|
| 1510 |
+
raise ValueError(f"Both {model_name} and fallback failed to load")
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1511 |
else:
|
| 1512 |
+
# causal-openvino path
|
| 1513 |
loader = agents.get("medical_data_extractor")
|
| 1514 |
if not loader or getattr(loader, 'model_name', None) != model_name:
|
| 1515 |
from ..utils.model_loader_spaces import get_openvino_pipeline
|
| 1516 |
+
model = await asyncio.to_thread(get_openvino_pipeline, model_name)
|
| 1517 |
+
actual_model_name, actual_model_type = model_name, model_type
|
| 1518 |
else:
|
| 1519 |
+
model = loader.model_loader.load() if hasattr(loader, "model_loader") else None
|
| 1520 |
+
actual_model_name, actual_model_type = model_name, model_type
|
| 1521 |
|
| 1522 |
+
if not model:
|
| 1523 |
error_msg = ERROR_MESSAGES["model_load_failed"]
|
| 1524 |
log_error_with_context(Exception(error_msg), "Model pipeline loading", job_id)
|
| 1525 |
try:
|
|
|
|
| 1529 |
update_job_with_error(job_id, error_msg, "model_load_failed")
|
| 1530 |
raise ValueError(error_msg)
|
| 1531 |
|
|
|
|
| 1532 |
monitor_memory_usage("text-generation model loading", job_id)
|
| 1533 |
|
| 1534 |
+
# Build prompt using helper
|
| 1535 |
+
prompt = build_text_generation_prompt(custom_prompt, visit_data_text, all_visits, ehr_data)
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1536 |
|
| 1537 |
+
# Use unified model manager for generation
|
| 1538 |
actual_model_type = "text-generation" if model_type in {"text-generation", "causal-openvino"} else model_type
|
| 1539 |
+
from ..utils.unified_model_manager import unified_model_manager as _unified_manager
|
| 1540 |
+
unified_model = _unified_manager.get_model(name=actual_model_name, model_type=actual_model_type, filename=None)
|
| 1541 |
+
if not unified_model.load():
|
|
|
|
|
|
|
|
|
|
| 1542 |
raise RuntimeError("Model failed to load")
|
| 1543 |
+
|
| 1544 |
+
config = create_generation_config(data, min_tokens=0, temperature=0.1, top_p=0.5)
|
| 1545 |
+
config.stream = False
|
| 1546 |
+
raw_summary = await asyncio.to_thread(unified_model.generate, prompt, config)
|
| 1547 |
+
|
|
|
|
|
|
|
| 1548 |
try:
|
| 1549 |
log_with_memory(logging.INFO, f"[SUMMARY] text-gen generated request_id={request_id} chars={len(raw_summary)}")
|
| 1550 |
except Exception:
|
| 1551 |
pass
|
| 1552 |
|
|
|
|
| 1553 |
cleanup_memory()
|
| 1554 |
monitor_memory_usage("text-generation completion", job_id)
|
| 1555 |
|
| 1556 |
total_time = time.perf_counter() - start_time
|
| 1557 |
print(f"[✅ SUCCESS] Text-generation | TIMEOUT_MODE: {timeout_mode} | TOTAL: {total_time:.1f}s")
|
| 1558 |
+
log_success(request_id, "text-gen", total_time)
|
|
|
|
|
|
|
|
|
|
| 1559 |
|
| 1560 |
+
result = build_result_dict(raw_summary, baseline, delta_text, prompt, model_name,
|
| 1561 |
+
model_type, timeout_mode, start_time)
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1562 |
if job_id:
|
| 1563 |
update_job(job_id, 'completed', progress=100, data=result)
|
| 1564 |
return result
|
| 1565 |
|
| 1566 |
elif model_type == "summarization":
|
|
|
|
| 1567 |
print(f"📝 SUMMARIZATION MODE: {model_name}")
|
| 1568 |
if job_id:
|
| 1569 |
update_job(job_id, 'processing', progress=70, data={'message': 'Generating summary with summarization model...'})
|
| 1570 |
+
|
| 1571 |
+
# Load model with fallback
|
| 1572 |
+
model, actual_model_name, actual_model_type = await load_model_with_fallback(
|
| 1573 |
+
model_name, "summarization", fallback_type=None
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1574 |
)
|
| 1575 |
+
|
| 1576 |
+
if not model:
|
| 1577 |
+
# Try legacy fallback
|
| 1578 |
+
try:
|
| 1579 |
+
loader = agents.get("summarizer")
|
| 1580 |
+
from ..utils import model_config as _mc
|
| 1581 |
+
default_sum = _mc.get_default_model('summarization')
|
| 1582 |
+
model = loader.model_loader.load() if hasattr(loader, "model_loader") else await asyncio.to_thread(get_summarizer_pipeline, "summarization", default_sum)
|
| 1583 |
+
actual_model_name, actual_model_type = default_sum, "summarization"
|
| 1584 |
+
except Exception as e:
|
| 1585 |
+
print(f"Fallback load failed: {e}")
|
| 1586 |
+
raise Exception(f"Failed to load model {model_name} and fallback")
|
| 1587 |
+
|
| 1588 |
+
# Build context using helper
|
| 1589 |
+
context = build_summarization_context(custom_prompt, visit_data_text, baseline, delta_text)
|
| 1590 |
+
|
| 1591 |
+
# Generate summary
|
| 1592 |
+
config = create_generation_config(data)
|
| 1593 |
+
result_sum = await asyncio.to_thread(model.generate, context, config)
|
| 1594 |
+
|
| 1595 |
+
# Extract text using helper
|
| 1596 |
+
raw_summary = extract_text_from_pipeline_result(result_sum)
|
| 1597 |
+
|
| 1598 |
+
# Fallback to rule-based if model indicates failure
|
| 1599 |
+
if raw_summary and is_error_response(raw_summary):
|
| 1600 |
+
raw_summary = generate_rule_based_summary(baseline, delta_text, all_visits, patientid)
|
| 1601 |
|
| 1602 |
total_time = time.perf_counter() - start_time
|
| 1603 |
print(f"[✅ SUCCESS] Summarization | TIMEOUT_MODE: {timeout_mode} | TOTAL: {total_time:.1f}s")
|
| 1604 |
+
log_success(request_id, "summarization", total_time)
|
|
|
|
|
|
|
|
|
|
| 1605 |
|
| 1606 |
+
result = build_result_dict(raw_summary, baseline, delta_text, context, model_name,
|
| 1607 |
+
model_type, timeout_mode, start_time)
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1608 |
if job_id:
|
| 1609 |
update_job(job_id, 'completed', progress=100, data=result)
|
| 1610 |
return result
|
| 1611 |
|
| 1612 |
elif model_type == "seq2seq":
|
|
|
|
| 1613 |
print(f"🔄 SEQ2SEQ MODE: {model_name}")
|
| 1614 |
if job_id:
|
| 1615 |
update_job(job_id, 'processing', progress=70, data={'message': 'Generating summary with seq2seq model...'})
|
| 1616 |
+
|
| 1617 |
try:
|
| 1618 |
+
# Load model with fallback (seq2seq uses summarization pipeline)
|
| 1619 |
+
model, actual_model_name, actual_model_type = await load_model_with_fallback(
|
| 1620 |
+
model_name, "seq2seq", fallback_type="summarization"
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1621 |
)
|
| 1622 |
+
|
| 1623 |
+
if not model:
|
| 1624 |
+
raise Exception(f"Both {model_name} and fallback failed to load")
|
| 1625 |
+
|
| 1626 |
+
# Build context using helper
|
| 1627 |
+
context = build_summarization_context(custom_prompt, visit_data_text, baseline, delta_text)
|
| 1628 |
+
|
| 1629 |
+
# Generate summary
|
| 1630 |
+
config = create_generation_config(data)
|
| 1631 |
+
result_seq = await asyncio.to_thread(model.generate, context, config)
|
| 1632 |
+
|
| 1633 |
+
# Extract text using helper
|
| 1634 |
+
raw_summary = extract_text_from_pipeline_result(result_seq)
|
| 1635 |
+
|
| 1636 |
+
# Fallback to rule-based if model indicates failure
|
| 1637 |
+
if raw_summary and is_error_response(raw_summary):
|
| 1638 |
raw_summary = generate_rule_based_summary(baseline, delta_text, all_visits, patientid)
|
| 1639 |
+
|
| 1640 |
total_time = time.perf_counter() - start_time
|
| 1641 |
print(f"[✅ SUCCESS] Seq2Seq | TIMEOUT_MODE: {timeout_mode} | TOTAL: {total_time:.1f}s")
|
| 1642 |
+
log_success(request_id, "seq2seq", total_time)
|
| 1643 |
+
|
| 1644 |
+
result = build_result_dict(raw_summary, baseline, delta_text, context, model_name,
|
| 1645 |
+
model_type, timeout_mode, start_time)
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1646 |
if job_id:
|
| 1647 |
update_job(job_id, 'completed', progress=100, data=result)
|
| 1648 |
return result
|
| 1649 |
except Exception as e:
|
| 1650 |
print(f"Seq2Seq model failed: {e}")
|
| 1651 |
# Fallback to rule-based
|
| 1652 |
+
raw_summary = generate_rule_based_summary(baseline, delta_text, all_visits, patientid)
|
| 1653 |
total_time = time.perf_counter() - start_time
|
| 1654 |
+
result = build_result_dict(raw_summary, baseline, delta_text, "", model_name,
|
| 1655 |
+
model_type, timeout_mode, start_time)
|
| 1656 |
+
result["warning"] = f"Seq2Seq model failed, used rule-based fallback: {str(e)}"
|
| 1657 |
+
result["model_used"] = f"{model_name} ({model_type}) - fallback"
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1658 |
if job_id:
|
| 1659 |
update_job(job_id, 'completed', progress=100, data=result)
|
| 1660 |
return result
|
|
|
|
| 1666 |
update_job(job_id, 'processing', progress=70, data={'message': f'Loading universal model: {model_name} ({model_type})'})
|
| 1667 |
|
| 1668 |
try:
|
| 1669 |
+
# Load model with fallback
|
| 1670 |
+
model, actual_model_name, actual_model_type = await load_model_with_fallback(
|
| 1671 |
+
model_name, model_type, fallback_type="summarization"
|
|
|
|
|
|
|
|
|
|
| 1672 |
)
|
| 1673 |
+
|
| 1674 |
+
if not model:
|
| 1675 |
+
raise Exception(f"Both {model_name} and fallback failed to load")
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1676 |
|
| 1677 |
if job_id:
|
| 1678 |
update_job(job_id, 'processing', progress=80, data={'message': f'Generating summary with {model_type} model...'})
|
| 1679 |
|
| 1680 |
+
# Build prompt (try text-generation format first, fallback to summarization)
|
| 1681 |
+
try:
|
| 1682 |
+
prompt = build_text_generation_prompt(custom_prompt, visit_data_text, all_visits, ehr_data)
|
| 1683 |
+
except Exception:
|
| 1684 |
+
prompt = build_summarization_context(custom_prompt, visit_data_text, baseline, delta_text)
|
| 1685 |
+
|
| 1686 |
+
# Generate summary
|
| 1687 |
+
if hasattr(model, 'generate'):
|
| 1688 |
raw_summary = await asyncio.wait_for(
|
| 1689 |
asyncio.to_thread(
|
| 1690 |
+
model.generate,
|
| 1691 |
prompt,
|
| 1692 |
max_tokens=_effective_max_new_tokens(data.get("max_new_tokens"), default=1024),
|
| 1693 |
temperature=0.1,
|
| 1694 |
top_p=0.5,
|
| 1695 |
),
|
| 1696 |
+
timeout=300
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1697 |
)
|
|
|
|
|
|
|
| 1698 |
else:
|
| 1699 |
+
config = create_generation_config(data, min_tokens=100, temperature=0.1, top_p=0.5)
|
| 1700 |
+
result = await asyncio.to_thread(model.generate, prompt, config)
|
| 1701 |
+
raw_summary = extract_text_from_pipeline_result(result) if not isinstance(result, str) else result
|
| 1702 |
|
|
|
|
| 1703 |
total_time = time.perf_counter() - start_time
|
| 1704 |
print(f"[✅ SUCCESS] Universal {model_type} | TIMEOUT_MODE: {timeout_mode} | TOTAL: {total_time:.1f}s")
|
| 1705 |
+
log_success(request_id, f"universal-{model_type}", total_time)
|
| 1706 |
|
| 1707 |
+
result = build_result_dict(raw_summary, baseline, delta_text, prompt, model_name,
|
| 1708 |
+
model_type, timeout_mode, start_time)
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1709 |
if job_id:
|
| 1710 |
update_job(job_id, 'completed', progress=100, data=result)
|
| 1711 |
return result
|
|
|
|
| 1713 |
except Exception as e:
|
| 1714 |
print(f"Universal model handling failed: {e}")
|
| 1715 |
# Fallback to rule-based generation
|
| 1716 |
+
raw_summary = generate_rule_based_summary(baseline, delta_text, all_visits, patientid)
|
| 1717 |
total_time = time.perf_counter() - start_time
|
| 1718 |
+
result = build_result_dict(raw_summary, baseline, delta_text, "", model_name,
|
| 1719 |
+
model_type, timeout_mode, start_time)
|
| 1720 |
+
result["warning"] = f"Model {model_name} ({model_type}) failed, used rule-based fallback: {str(e)}"
|
| 1721 |
+
result["model_used"] = f"{model_name} ({model_type}) - fallback"
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1722 |
if job_id:
|
| 1723 |
update_job(job_id, 'completed', progress=100, data=result)
|
| 1724 |
return result
|
services/ai-service/src/ai_med_extract/utils/common_helpers.py
ADDED
|
@@ -0,0 +1,146 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
"""
|
| 2 |
+
Common helper functions used across the project.
|
| 3 |
+
Centralizes common patterns to avoid code duplication.
|
| 4 |
+
"""
|
| 5 |
+
|
| 6 |
+
import time
|
| 7 |
+
import logging
|
| 8 |
+
from typing import Any, Dict, Optional, Union, List
|
| 9 |
+
from functools import wraps
|
| 10 |
+
|
| 11 |
+
logger = logging.getLogger(__name__)
|
| 12 |
+
|
| 13 |
+
# ========== TIMING HELPERS ==========
|
| 14 |
+
def timing_decorator(func):
|
| 15 |
+
"""Decorator to measure function execution time."""
|
| 16 |
+
@wraps(func)
|
| 17 |
+
def wrapper(*args, **kwargs):
|
| 18 |
+
start = time.perf_counter()
|
| 19 |
+
try:
|
| 20 |
+
result = func(*args, **kwargs)
|
| 21 |
+
duration = time.perf_counter() - start
|
| 22 |
+
logger.debug(f"{func.__name__} took {duration:.3f}s")
|
| 23 |
+
return result
|
| 24 |
+
except Exception as e:
|
| 25 |
+
duration = time.perf_counter() - start
|
| 26 |
+
logger.error(f"{func.__name__} failed after {duration:.3f}s: {e}")
|
| 27 |
+
raise
|
| 28 |
+
return wrapper
|
| 29 |
+
|
| 30 |
+
def async_timing_decorator(func):
|
| 31 |
+
"""Decorator to measure async function execution time."""
|
| 32 |
+
@wraps(func)
|
| 33 |
+
async def wrapper(*args, **kwargs):
|
| 34 |
+
start = time.perf_counter()
|
| 35 |
+
try:
|
| 36 |
+
result = await func(*args, **kwargs)
|
| 37 |
+
duration = time.perf_counter() - start
|
| 38 |
+
logger.debug(f"{func.__name__} took {duration:.3f}s")
|
| 39 |
+
return result
|
| 40 |
+
except Exception as e:
|
| 41 |
+
duration = time.perf_counter() - start
|
| 42 |
+
logger.error(f"{func.__name__} failed after {duration:.3f}s: {e}")
|
| 43 |
+
raise
|
| 44 |
+
return wrapper
|
| 45 |
+
|
| 46 |
+
# ========== EXTRACTION HELPERS ==========
|
| 47 |
+
def extract_text_from_pipeline_result(result: Any) -> str:
|
| 48 |
+
"""Extract text from pipeline result (handles different output formats)."""
|
| 49 |
+
if isinstance(result, list) and result and isinstance(result[0], dict):
|
| 50 |
+
if "summary_text" in result[0]:
|
| 51 |
+
return result[0]["summary_text"]
|
| 52 |
+
elif "generated_text" in result[0]:
|
| 53 |
+
return result[0]["generated_text"]
|
| 54 |
+
if result is None:
|
| 55 |
+
return ""
|
| 56 |
+
return str(result)
|
| 57 |
+
|
| 58 |
+
def safe_get(data: Dict, keys: List[str], default: Any = None) -> Any:
|
| 59 |
+
"""Safely get value from nested dictionary using multiple possible keys."""
|
| 60 |
+
for key in keys:
|
| 61 |
+
if key in data:
|
| 62 |
+
return data[key]
|
| 63 |
+
return default
|
| 64 |
+
|
| 65 |
+
# ========== VALIDATION HELPERS ==========
|
| 66 |
+
def validate_required_fields(data: Dict, required_fields: List[str]) -> None:
|
| 67 |
+
"""Validate that all required fields are present in data."""
|
| 68 |
+
missing = [field for field in required_fields if not data.get(field)]
|
| 69 |
+
if missing:
|
| 70 |
+
raise ValueError(f"Missing required fields: {', '.join(missing)}")
|
| 71 |
+
|
| 72 |
+
def validate_file_size(file_size: int, max_size_mb: int) -> bool:
|
| 73 |
+
"""Validate file size is within limits."""
|
| 74 |
+
max_size_bytes = max_size_mb * 1024 * 1024
|
| 75 |
+
return file_size <= max_size_bytes
|
| 76 |
+
|
| 77 |
+
# ========== STRING HELPERS ==========
|
| 78 |
+
def truncate_string(text: str, max_length: int, suffix: str = "...") -> str:
|
| 79 |
+
"""Truncate string to max length with suffix."""
|
| 80 |
+
if len(text) <= max_length:
|
| 81 |
+
return text
|
| 82 |
+
return text[:max_length - len(suffix)] + suffix
|
| 83 |
+
|
| 84 |
+
def clean_text(text: str) -> str:
|
| 85 |
+
"""Clean text by removing extra whitespace and normalizing."""
|
| 86 |
+
if not text:
|
| 87 |
+
return ""
|
| 88 |
+
lines = [line.strip() for line in text.splitlines()]
|
| 89 |
+
return "\n".join(line for line in lines if line)
|
| 90 |
+
|
| 91 |
+
# ========== ERROR HANDLING HELPERS ==========
|
| 92 |
+
def is_error_response(response: str) -> bool:
|
| 93 |
+
"""Check if response indicates an error."""
|
| 94 |
+
error_indicators = ["not available", "failed", "error:", "exception", "traceback"]
|
| 95 |
+
response_lower = response.lower()
|
| 96 |
+
return any(indicator in response_lower for indicator in error_indicators)
|
| 97 |
+
|
| 98 |
+
def create_error_dict(error: Exception, context: str, job_id: Optional[str] = None) -> Dict:
|
| 99 |
+
"""Create standardized error dictionary."""
|
| 100 |
+
return {
|
| 101 |
+
"error": str(error),
|
| 102 |
+
"error_type": type(error).__name__,
|
| 103 |
+
"context": context,
|
| 104 |
+
"job_id": job_id,
|
| 105 |
+
"timestamp": time.time()
|
| 106 |
+
}
|
| 107 |
+
|
| 108 |
+
# ========== CONFIGURATION HELPERS ==========
|
| 109 |
+
def merge_config(default: Dict, override: Dict) -> Dict:
|
| 110 |
+
"""Merge two configuration dictionaries, with override taking precedence."""
|
| 111 |
+
result = default.copy()
|
| 112 |
+
result.update(override)
|
| 113 |
+
return result
|
| 114 |
+
|
| 115 |
+
def get_nested_value(data: Dict, path: str, default: Any = None) -> Any:
|
| 116 |
+
"""Get nested value from dictionary using dot notation path."""
|
| 117 |
+
keys = path.split(".")
|
| 118 |
+
current = data
|
| 119 |
+
for key in keys:
|
| 120 |
+
if isinstance(current, dict) and key in current:
|
| 121 |
+
current = current[key]
|
| 122 |
+
else:
|
| 123 |
+
return default
|
| 124 |
+
return current
|
| 125 |
+
|
| 126 |
+
# ========== RETRY HELPERS ==========
|
| 127 |
+
def retry_on_exception(max_attempts: int = 3, delay: float = 1.0, exceptions: tuple = (Exception,)):
|
| 128 |
+
"""Decorator to retry function on specific exceptions."""
|
| 129 |
+
def decorator(func):
|
| 130 |
+
@wraps(func)
|
| 131 |
+
def wrapper(*args, **kwargs):
|
| 132 |
+
last_exception = None
|
| 133 |
+
for attempt in range(max_attempts):
|
| 134 |
+
try:
|
| 135 |
+
return func(*args, **kwargs)
|
| 136 |
+
except exceptions as e:
|
| 137 |
+
last_exception = e
|
| 138 |
+
if attempt < max_attempts - 1:
|
| 139 |
+
time.sleep(delay * (attempt + 1))
|
| 140 |
+
logger.warning(f"{func.__name__} attempt {attempt + 1} failed: {e}, retrying...")
|
| 141 |
+
else:
|
| 142 |
+
logger.error(f"{func.__name__} failed after {max_attempts} attempts")
|
| 143 |
+
raise last_exception
|
| 144 |
+
return wrapper
|
| 145 |
+
return decorator
|
| 146 |
+
|
services/ai-service/src/ai_med_extract/utils/constants.py
ADDED
|
@@ -0,0 +1,139 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
"""
|
| 2 |
+
Centralized constants and configuration for the AI medical extraction service.
|
| 3 |
+
All constants should be defined here to avoid duplication and improve maintainability.
|
| 4 |
+
"""
|
| 5 |
+
|
| 6 |
+
import os
|
| 7 |
+
from typing import Dict
|
| 8 |
+
|
| 9 |
+
# ========== ENVIRONMENT DETECTION ==========
|
| 10 |
+
IS_HF_SPACES = os.getenv("HUGGINGFACE_SPACES", "").lower() == "true"
|
| 11 |
+
HF_SPACES = os.environ.get('HF_SPACES', 'false').lower() == 'true'
|
| 12 |
+
|
| 13 |
+
# ========== TIMEOUT CONFIGURATION ==========
|
| 14 |
+
TIMEOUT_CONFIG = {
|
| 15 |
+
"fast": {
|
| 16 |
+
"ehr_timeout": 10,
|
| 17 |
+
"generation_timeout": 30,
|
| 18 |
+
"gguf_timeout": 180,
|
| 19 |
+
"gguf_extended_timeout": 600,
|
| 20 |
+
"retry_attempts": 2
|
| 21 |
+
},
|
| 22 |
+
"normal": {
|
| 23 |
+
"ehr_timeout": 30,
|
| 24 |
+
"generation_timeout": 120,
|
| 25 |
+
"gguf_timeout": 240,
|
| 26 |
+
"gguf_extended_timeout": 600,
|
| 27 |
+
"retry_attempts": 3
|
| 28 |
+
},
|
| 29 |
+
"extended": {
|
| 30 |
+
"ehr_timeout": 60,
|
| 31 |
+
"generation_timeout": 300,
|
| 32 |
+
"gguf_timeout": 600,
|
| 33 |
+
"gguf_extended_timeout": 900,
|
| 34 |
+
"retry_attempts": 3
|
| 35 |
+
},
|
| 36 |
+
"large_data": {
|
| 37 |
+
"ehr_timeout": 90,
|
| 38 |
+
"generation_timeout": 600,
|
| 39 |
+
"gguf_timeout": 900,
|
| 40 |
+
"gguf_extended_timeout": 1200,
|
| 41 |
+
"retry_attempts": 2
|
| 42 |
+
}
|
| 43 |
+
}
|
| 44 |
+
|
| 45 |
+
# ========== CACHE CONFIGURATION ==========
|
| 46 |
+
CACHE_CONFIG = {
|
| 47 |
+
"ttl_seconds": 3600, # 1 hour
|
| 48 |
+
"cache_dir": "/tmp/summary_cache",
|
| 49 |
+
"max_cache_size": 100
|
| 50 |
+
}
|
| 51 |
+
|
| 52 |
+
# ========== ERROR MESSAGES ==========
|
| 53 |
+
ERROR_MESSAGES = {
|
| 54 |
+
"missing_fields": "Missing required fields: patientid, token, or key",
|
| 55 |
+
"ehr_timeout": "EHR API timeout. The external EHR system may be unreachable or slow.",
|
| 56 |
+
"ehr_connection": "EHR API connection failed. Please check network connectivity.",
|
| 57 |
+
"ehr_error": "EHR API error occurred while fetching patient data.",
|
| 58 |
+
"no_visits": "No visits found in EHR data",
|
| 59 |
+
"model_load_failed": "Failed to load AI model. Please try again or contact support.",
|
| 60 |
+
"generation_timeout": "Summary generation timed out. Please try again with a simpler request.",
|
| 61 |
+
"generation_failed": "Summary generation failed. Please try again or contact support.",
|
| 62 |
+
"cache_error": "Cache operation failed. Continuing with fresh generation."
|
| 63 |
+
}
|
| 64 |
+
|
| 65 |
+
# ========== MEMORY CONFIGURATION ==========
|
| 66 |
+
MEMORY_CONFIG = {
|
| 67 |
+
"max_memory_usage": 0.8, # 80% of available memory
|
| 68 |
+
"enable_quantization": True,
|
| 69 |
+
"cache_models": True,
|
| 70 |
+
"cleanup_interval": 300, # 5 minutes
|
| 71 |
+
"max_memory_mb": 6000,
|
| 72 |
+
"memory_pressure_threshold": 0.8,
|
| 73 |
+
"aggressive_cleanup_threshold": 0.9
|
| 74 |
+
}
|
| 75 |
+
|
| 76 |
+
# ========== GENERATION CONFIGURATION ==========
|
| 77 |
+
DEFAULT_GENERATION_CONFIG = {
|
| 78 |
+
"max_new_tokens": 1024,
|
| 79 |
+
"min_tokens": 100,
|
| 80 |
+
"temperature": 0.1,
|
| 81 |
+
"top_p": 0.5,
|
| 82 |
+
"do_sample": False,
|
| 83 |
+
"stream": False
|
| 84 |
+
}
|
| 85 |
+
|
| 86 |
+
# ========== MODEL TYPE MAPPINGS ==========
|
| 87 |
+
MODEL_TYPE_MAPPINGS = {
|
| 88 |
+
"gguf": "gguf",
|
| 89 |
+
".gguf": "gguf",
|
| 90 |
+
"openvino": "openvino",
|
| 91 |
+
"ov": "openvino",
|
| 92 |
+
"causal-openvino": "causal-openvino",
|
| 93 |
+
"text-generation": "text-generation",
|
| 94 |
+
"summarization": "summarization",
|
| 95 |
+
"seq2seq": "seq2seq",
|
| 96 |
+
"ner": "ner"
|
| 97 |
+
}
|
| 98 |
+
|
| 99 |
+
# ========== FILE SIZE LIMITS ==========
|
| 100 |
+
FILE_SIZE_LIMITS = {
|
| 101 |
+
"max_file_size_mb": 100,
|
| 102 |
+
"max_pdf_size_mb": 50,
|
| 103 |
+
"max_image_size_mb": 10,
|
| 104 |
+
"max_audio_size_mb": 100
|
| 105 |
+
}
|
| 106 |
+
|
| 107 |
+
# ========== ALLOWED FILE TYPES ==========
|
| 108 |
+
ALLOWED_EXTENSIONS = {
|
| 109 |
+
"document": {"pdf", "docx", "doc", "txt"},
|
| 110 |
+
"image": {"jpg", "jpeg", "png", "gif", "bmp", "tiff"},
|
| 111 |
+
"audio": {"mp3", "wav", "ogg", "flac", "m4a"}
|
| 112 |
+
}
|
| 113 |
+
|
| 114 |
+
# ========== LOGGING LEVELS ==========
|
| 115 |
+
LOG_LEVELS = {
|
| 116 |
+
"DEBUG": 10,
|
| 117 |
+
"INFO": 20,
|
| 118 |
+
"WARNING": 30,
|
| 119 |
+
"ERROR": 40,
|
| 120 |
+
"CRITICAL": 50
|
| 121 |
+
}
|
| 122 |
+
|
| 123 |
+
# ========== HELPER FUNCTIONS ==========
|
| 124 |
+
def get_timeout_config(mode: str = "normal") -> Dict:
|
| 125 |
+
"""Get timeout configuration for a specific mode."""
|
| 126 |
+
return TIMEOUT_CONFIG.get(mode, TIMEOUT_CONFIG["normal"])
|
| 127 |
+
|
| 128 |
+
def get_cache_config() -> Dict:
|
| 129 |
+
"""Get cache configuration."""
|
| 130 |
+
return CACHE_CONFIG.copy()
|
| 131 |
+
|
| 132 |
+
def get_memory_config() -> Dict:
|
| 133 |
+
"""Get memory configuration."""
|
| 134 |
+
return MEMORY_CONFIG.copy()
|
| 135 |
+
|
| 136 |
+
def get_default_generation_config() -> Dict:
|
| 137 |
+
"""Get default generation configuration."""
|
| 138 |
+
return DEFAULT_GENERATION_CONFIG.copy()
|
| 139 |
+
|