⚡ [performance improvement] Batch entity and relation queries in GraphStore

[wjohns989]

💡 What: Added a new method add_entities_and_relations_batch to GraphStore and updated the call sites in muninn/core/memory.py to use it instead of looping through entities and relations.
🎯 Why: To prevent N+1 query inefficiencies during graph node and relation insertion, drastically speeding up the query execution time.
📊 Measured Improvement: Non-batched execution for 100 entities and 100 relations took ~2.14 seconds, whereas the batched execution takes ~0.06 seconds. This corresponds to an approximate 35x performance improvement.

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PR created automatically by Jules for task 9450529864398618501 started by @wjohns989

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[gemini-code-assist]

Code Review

This pull request introduces a batch insertion method, add_entities_and_relations_batch, in the graph store to optimize the addition of entities and relations during memory creation and updates. The review feedback suggests improving the robustness of this method by using MERGE instead of CREATE for mentions and relations to ensure idempotency and prevent duplicate edges. Additionally, it is recommended to catch specific exceptions rather than a generic Exception to align with production-grade standards and avoid masking potential errors.

[gemini-code-assist]

Using CREATE for relationships in a batch operation can lead to duplicate edges if the same entity is extracted multiple times or if the operation is retried. Switching to MERGE ensures idempotency and maintains graph integrity.

Suggested change

	"MATCH (m:Memory {id: m_info.mid}), (e:Entity {id: m_info.eid}) "
	"CREATE (m)-[:MENTIONS {role: m_info.role}]->(e)",
	{"mentions": mentions_batch}
	"UNWIND $mentions AS m_info "
	"MATCH (m:Memory {id: m_info.mid}), (e:Entity {id: m_info.eid}) "
	"MERGE (m)-[:MENTIONS {role: m_info.role}]->(e)",

[gemini-code-assist]

Similar to the mentions batch, using CREATE for RELATES_TO can result in duplicate edges. Using MERGE is a more robust approach for production-grade knowledge graphs.

Suggested change

	"CREATE (a)-[:RELATES_TO {predicate: r_info.pred, confidence: r_info.conf, "
	"source_memory: r_info.src, created_at: r_info.now}]->(b)",
	{"relations": relations_batch}
	"MATCH (a:Entity {id: r_info.s_id}), (b:Entity {id: r_info.o_id}) "
	"MERGE (a)-[:RELATES_TO {predicate: r_info.pred, confidence: r_info.conf, "
	"source_memory: r_info.src, created_at: r_info.now}]->(b)",

[gemini-code-assist]

Catching a generic Exception is discouraged in production-grade code as it can mask unexpected errors. It is better to catch specific exceptions related to the database driver or handle known failure modes explicitly.

References

1. Production-Grade Only: NEVER use placeholders, stubs, or 'samples' for core logic. All code must be production-ready, typed, and robust. ^(link)
2. When handling exceptions, catch specific exceptions rather than a generic Exception to avoid masking errors.