Initial commit: RAG MCP Server with relationship graph

Features:
- Vector search with Pinecone + Vertex AI embeddings
- Document relationships (link, unlink, related, graph)
- Auto-link with LLM analysis
- Intelligent merge with Gemini

Modular structure:
- clients/: Pinecone, Vertex AI
- tools/: core, relations, stats
- utils/: validation, logging

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

utils/logging.py

@@ -0,0 +1,30 @@
+"""Logging configuration for RAG system."""
+import logging
+import sys
+
+def setup_logging(level: str = "INFO") -> None:
+    """
+    Setup logging configuration.
+
+    Args:
+        level: Logging level (DEBUG, INFO, WARNING, ERROR, CRITICAL)
+    """
+    logging.basicConfig(
+        level=getattr(logging, level.upper(), logging.INFO),
+        format='%(asctime)s - %(name)s - %(levelname)s - %(message)s',
+        handlers=[
+            logging.StreamHandler(sys.stdout)
+        ]
+    )
+
+def get_logger(name: str) -> logging.Logger:
+    """
+    Get logger instance.
+
+    Args:
+        name: Logger name (usually __name__)
+
+    Returns:
+        Logger instance
+    """
+    return logging.getLogger(name)