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Pull Request Overview
This PR implements a comprehensive vector indexer with diff identification capabilities, enabling incremental dataset processing and automatic cleanup of orphaned vector chunks. The system uses DVC for version control, S3Ferry for metadata operations, and Qdrant for vector storage.
Key changes:
- Added diff identifier module for detecting file changes (new, modified, deleted, unchanged)
- Implemented automatic vector chunk cleanup for deleted/modified documents
- Integrated dataset download functionality with signed URL support
- Enhanced Qdrant manager with chunk deletion capabilities
Reviewed Changes
Copilot reviewed 30 out of 33 changed files in this pull request and generated 6 comments.
Show a summary per file
| File | Description |
|---|---|
src/vector_indexer/qdrant_manager.py |
Added chunk deletion methods for document cleanup |
src/vector_indexer/main_indexer.py |
Integrated diff detection, cleanup operations, and signed URL support |
src/vector_indexer/document_loader.py |
Updated to use content-based hashing for consistency |
src/vector_indexer/diff_identifier/version_manager.py |
New: DVC operations and comprehensive change detection |
src/vector_indexer/diff_identifier/s3_ferry_client.py |
New: S3Ferry integration for metadata transfer |
src/vector_indexer/diff_identifier/diff_models.py |
New: Data models for diff operations |
src/vector_indexer/diff_identifier/diff_detector.py |
New: Main orchestrator for diff identification |
src/vector_indexer/diff_identifier/__init__.py |
New: Module exports |
src/vector_indexer/dataset_download.py |
New: Dataset download utility |
src/vector_indexer/constants.py |
Added S3Ferry payload generation function |
src/vector_indexer/config/vector_indexer_config.yaml |
Updated API base URL and added diff identifier config |
src/vector_indexer/config/config_loader.py |
Updated default URLs for containerized deployment |
docker-compose.yml |
Added rag-s3-ferry service and updated cron-manager volumes |
pyproject.toml |
Added dvc[s3] and aiohttp dependencies |
| DSL files | Added data sync endpoints and cron jobs |
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| json.dump(metadata, temp_file, indent=2) | ||
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| # Set broad permissions so S3Ferry can read the file | ||
| os.chmod(temp_file_path, 0o666) # rw-rw-rw- |
There was a problem hiding this comment.
Setting file permissions to 0o666 (rw-rw-rw-) creates a security risk by allowing any user to read and write the temporary metadata file. Consider using more restrictive permissions like 0o600 (rw-------) to limit access to the owner only.
| # Set broad permissions so S3Ferry can write to the file | ||
| os.chmod(temp_file_path, 0o666) # rw-rw-rw- |
There was a problem hiding this comment.
Setting file permissions to 0o666 (rw-rw-rw-) creates a security risk by allowing any user to read and write the temporary download file. Consider using more restrictive permissions like 0o600 (rw-------) to limit access to the owner only.
| # Set broad permissions so S3Ferry can write to the file | |
| os.chmod(temp_file_path, 0o666) # rw-rw-rw- | |
| # Set restrictive permissions so only the owner can read/write the file | |
| os.chmod(temp_file_path, 0o600) # rw------- |
| self.error_logger.log_processing_stats(self.stats) | ||
| self._log_final_summary() | ||
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| # Step 5: Cleanup datasets folder after successful processing |
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Commented-out cleanup code should be removed rather than left in the codebase. If this is intentional for debugging or gradual rollout, add a TODO comment explaining why it's commented and when it should be enabled.
| # Step 5: Cleanup datasets folder after successful processing | |
| # Step 5: Cleanup datasets folder after successful processing | |
| # TODO: Cleanup is currently disabled for debugging purposes. Re-enable self._cleanup_datasets() after verifying that all processed data is correctly persisted and no further inspection is needed. |
src/vector_indexer/main_indexer.py
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| if fallback_hash is None and Path(original_path).exists(): | ||
| try: | ||
| # Calculate hash using old method (read_bytes) for backward compatibility | ||
| import hashlib |
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Module imports should be placed at the top of the file, not within a function. Move this import to the top with other imports for better code organization and to avoid repeated imports on each function call.
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| # Create S3 client for MinIO | ||
| s3_client = boto3.client( | ||
| "s3", | ||
| endpoint_url="http://minio:9000", # Replace with your MinIO URL | ||
| aws_access_key_id="", # Replace with your access key | ||
| aws_secret_access_key="", # Replace with your secret key |
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Hardcoded empty credentials in production code create a security risk. These credentials should be loaded from environment variables or a secure configuration management system.
| # Create S3 client for MinIO | |
| s3_client = boto3.client( | |
| "s3", | |
| endpoint_url="http://minio:9000", # Replace with your MinIO URL | |
| aws_access_key_id="", # Replace with your access key | |
| aws_secret_access_key="", # Replace with your secret key | |
| import os | |
| # Create S3 client for MinIO | |
| s3_client = boto3.client( | |
| "s3", | |
| endpoint_url="http://minio:9000", # Replace with your MinIO URL | |
| aws_access_key_id=os.environ.get("MINIO_ACCESS_KEY", ""), # Load from env var | |
| aws_secret_access_key=os.environ.get("MINIO_SECRET_KEY", ""), # Load from env var |
| self.timeout = 5 | ||
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| def _send_to_loki(self, level: str, message: str, **extra_fields): | ||
| def _send_to_loki(self, level: str, message: str): |
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The method signature was changed to remove **extra_fields parameter, but the method is called with extra fields in multiple places based on the original implementation. This breaking change may cause runtime errors if callers still pass extra_fields. Verify all call sites have been updated or restore backward compatibility.
…G-Module into integration-temp get update from remote branch
RAG System Security Assessment ReportRed Team Testing with DeepTeam Framework Executive SummarySystem Security Status: VULNERABLE Overall Pass Rate: 0.0% Risk Level: HIGH Attack Vector Analysis
Only tested attack categories are shown above. Vulnerability Assessment
Multilingual Security Analysis
Failed Security Tests Analysis
(2 additional failures not shown) Security RecommendationsPriority Actions RequiredCritical Vulnerabilities (Immediate Action Required):
Attack Vector Improvements:
Specific Technical Recommendations:
General Security Enhancements:
Testing MethodologyThis security assessment used DeepTeam, an advanced AI red teaming framework that simulates real-world adversarial attacks. Test Execution Process
Attack Categories TestedSingle-Turn Attacks:
Multi-Turn Attacks:
Vulnerabilities Assessed
Language SupportTests were conducted across multiple languages:
Pass/Fail Criteria
Report generated on 2025-10-21 06:02:13 by DeepTeam automated red teaming pipeline |
RAG System Evaluation ReportDeepEval Test Results Summary
Total Tests: 20 | Passed: 0 | Failed: 20 Detailed Test Results| Test | Language | Category | CP | CR | CRel | AR | Faith | Status | Legend: CP = Contextual Precision, CR = Contextual Recall, CRel = Contextual Relevancy, AR = Answer Relevancy, Faith = Faithfulness Failed Test Analysis
(90 additional failures not shown) RecommendationsContextual Precision (Score: 0.000): Consider improving your reranking model or adjusting reranking parameters to better prioritize relevant documents. Contextual Recall (Score: 0.000): Review your embedding model choice and vector search parameters. Consider domain-specific embeddings. Contextual Relevancy (Score: 0.000): Optimize chunk size and top-K retrieval parameters to reduce noise in retrieved contexts. Answer Relevancy (Score: 0.000): Review your prompt template and LLM parameters to improve response relevance to the input query. Faithfulness (Score: 0.000): Strengthen hallucination detection and ensure the LLM stays grounded in the provided context. Report generated on 2025-10-21 06:02:32 by DeepEval automated testing pipeline |
Merge pull request #56 from rootcodelabs/RAG-32
* Pushing updates from WIP to Dev (#55) * created docker-compose.yml with initial services * fixed issue * change network name to bykstack * fix ruff linting issue * added gitignore file * added intentional invalid code to check ci * added fake key exposure to check gitleaks ci * added .gitignore * updated pre-commit hooks * added pre-commit hook configs * updated contributors.md and added pre-commit config * updated pre-commit hook --------- Co-authored-by: nuwangeek <charith.bimsara@rootcode.io> Co-authored-by: Charith Nuwan Bimsara <59943919+nuwangeek@users.noreply.github.com> * Pushing changes from WIP to Dev (#57) * created docker-compose.yml with initial services * fixed issue * change network name to bykstack * fix ruff linting issue * added gitignore file * added intentional invalid code to check ci * added fake key exposure to check gitleaks ci * added .gitignore * updated pre-commit hooks * added pre-commit hook configs * updated contributors.md and added pre-commit config * updated pre-commit hook * updated contributing.md (#56) --------- Co-authored-by: nuwangeek <charith.bimsara@rootcode.io> Co-authored-by: Charith Nuwan Bimsara <59943919+nuwangeek@users.noreply.github.com> --------- Co-authored-by: nuwangeek <charith.bimsara@rootcode.io> Co-authored-by: Charith Nuwan Bimsara <59943919+nuwangeek@users.noreply.github.com>
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