genesys

<!-- mcp-name: io.github.Astrix-Labs/genesys-memory --> [](https://pypi.org/project/genesys-memory/) [](https://pypi.org/project/genesys-memory/) [](https://github.com/Astrix-Labs/genesys/actions/workflows/ci.yml) [](https://www.gnu.org/licenses/agpl-3.0) # Genesys **The intelligence layer for AI memory.** > Genesys doesn't just remember what happened; it remembers why. A scoring engine + causal graph + lifecycle manager for AI agent memory. Speaks MCP natively. <img width="1512" height="827" alt="image" src="https://github.com/user-attachments/assets/d152aa07-a852-4b8e-9f98-942d0bebd497" /> ## What is this Genesys is a scoring engine, causal graph, and lifecycle manager for AI memory. Memories are scored by a multiplicative formula (relevance × connectivity × reactivation), connected in a causal graph, and actively forgotten when they become irrelevant. This package (`genesys-memory`) is the core library: an in-memory causal graph engine with optional JSON persistence, plus a stdio MCP server. It has no database dependency and no REST API. A hosted product built on top of this library — with Postgres, additional storage backends, and a REST/HTTP MCP API — is available separately at `genesys-api.astrixlabs.ai`; it is not part of this package. ## Why - **Flat memory doesn't scale.** Dumping everything into a vector store gives you recall with zero understanding. The 500th memory buries the 5 that matter. - **No forgetting = no intelligence.** Real memory systems forget. Without active pruning, your AI drowns in stale context. - **No causal reasoning.** Vector similarity can't answer "why did I choose X?" — you need a graph. Your AI remembers everything but understands nothing. Genesys fixes that. ## Quick Start Install the package. The base install has zero database dependencies — state lives in memory and is optionally persisted to a JSON file. ```bash pip install genesys-memory ``` Optional extras: ```bash pip install 'genesys-memory[openai]' # OpenAI embeddings pip install 'genesys-memory[local]' # Local embeddings (sentence-transformers, no API key) pip install 'genesys-memory[anthropic]' # LLM-based causal inference (consolidation, contradiction detection) ``` Run the stdio MCP server directly: ```bash python3 -m genesys_memory ``` ### From source ```bash git clone https://github.com/Astrix-Labs/genesys.git cd genesys pip install -e '.[dev]' pytest tests/ ``` ## Connect to your AI ### Claude Code ```bash claude mcp add genesys -- python -m genesys_memory ``` ### Claude Desktop Add to your `claude_desktop_config.json`: ```json { "mcpServers": { "genesys": { "command": "python", "args": ["-m", "genesys_memory"] } } } ``` ### Reliability & retries The stdio server is a single local process. Under load — or during a restart or redeploy of a hosted transport in front of it — a tool call can transiently fail or the connection can briefly go unresponsive. Memory writes and reads are not worth crashing an agent turn over, so **clients should degrade gracefully rather than treat a memory call as fatal**: - **The server degrades gracefully too**: a tool exception (or a missing required argument) is returned as a structured `{"error": "...", "retryable": bool}` payload instead of a protocol-level MCP failure, so a memory hiccup never crashes the transport. The `retryable` flag encodes the guidance below — `true` only for read tools. - **Retry idempotent reads** (`memory_recall`, `memory_search`, `memory_traverse`, `memory_explain`, `memory_stats`) with a short bounded backoff (e.g. 2–3 attempts). These have no side effects worth worrying about beyond reactivation bookkeeping. - **Do not blindly retry `memory_store` / `memory_amend`** on an ambiguous timeout — a silent success followed by a retry creates a duplicate node. Prefer to continue the turn and reconcile on the next `memory_recall`, or pass a stable `source_session` so duplicates are easy to spot. - **Treat memory as best-effort context, not a hard dependency.** If a call fails, proceed with whatever context you already have and try again next turn rather than aborting. The graph is durable; a missed write is recoverable, a crashed agent turn is not. ## MCP Tools | Tool | Description | |------|-------------| | `memory_store` | Store a new memory. Use `related` for writer-specified **typed** edges (`{id, type}`); `related_to` is legacy and always creates `caused_by`. Optional `category`. May return `possible_conflicts` (heuristic hints). | | `memory_amend` | Record a correction: creates a new memory that **supersedes** an existing one. The old memory is kept (decayed in recall), not deleted. | | `memory_recall` | Recall memories by natural language query (vector + keyword + graph spreading activation). Supports `verbosity: "concise"` for lightweight payloads. | | `memory_search` | Filtered vector search by status, category, date (`since`), last-active date (`active_since`), or entity. Pass an **empty query** to enumerate by recency instead (no embedder needed) — with `since`/`active_since` this answers "what's new since I last looked" without knowing what to query for. | | `memory_traverse` | Walk the causal graph from a node. Returns reachable **nodes and the edges** of the induced subgraph (`source/target/type/weight/created_by`) — a superset of the BFS tree, so paths can be reconstructed. Honors `edge_types`. | | `memory_explain` | Explain a memory's score. Includes a `score_model` block (formula + live per-force breakdown + staleness note) and `removal_impact`. | | `memory_stats` | Get memory system statistics | | `pin_memory` | Pin a memory so it's never forgotten | | `unpin_memory` | Unpin a previously pinned memory | | `delete_memory` | Permanently delete a memory | | `list_core_memories` | List core memories, optionally filtered by category | | `set_core_preferences` | Set user preferences for core memory categories | | `promote_to_org` | Promote a private memory to org visibility | ### Writer-specified edges & corrections `memory_store`'s `related` argument lets the writer set edge semantics instead of guessing. Each entry is `{"id": "<node-id>", "type": "<edge-type>"}`, directed `new_node --type--> target` (so `supersedes` means the new node supersedes the target). Invalid types are rejected **before** the node is created — explicit writes never half-succeed. `related_to` still exists but always creates `caused_by`; prefer `related`. To correct a fact, use `memory_amend(node_id, content, reason=...)`: it stores the new version, links it `SUPERSEDES → old`, and **keeps the old memory** for audit. Recall automatically deprioritizes superseded hits and tags them with `superseded_by`. When you `memory_store` something that lexically disagrees with an auto-link candidate (a changed number, a negation), the result may include `possible_conflicts` — heuristic hints, **not** verified contradictions, and never materialized as edges. Use them to decide whether to `memory_amend`. ### Concise recall `memory_recall(query, verbosity="concise")` skips the causal-chain enrichment and returns only `id / summary / status / score / activation / is_core` (plus `superseded_by` when set) per hit — much cheaper on tokens for high-frequency lookups. `verbosity="full"` (the default) is unchanged. Reactivation writes still occur in both modes (they are governed by `read_only`, not `verbosity`). See [`docs/scoring.md`](docs/scoring.md) for what `activation` / `decay_score` actually mean — in short, it is a retention weight that **rises** when a memory is recalled, not a countdown to deletion. ## How it works Every memory is scored by three forces multiplied together: ``` decay_score = relevance × connectivity × reactivation ``` - **Relevance** decays over time. Old memories fade unless reinforced. - **Connectivity** rewards memories with many causal links. Hub memories survive. - **Reactivation** boosts memories that keep getting recalled. Frequency matters. Because the formula is multiplicative, a memory must score on *all three* axes to survive. A highly connected but never-accessed memory still decays. A frequently recalled but causally orphaned memory still fades. `decay_score` (aliased `activation` on every hit) is a **retention weight, not a deletion countdown** — recalling a memory *raises* it, and a low score just means "resting," not "doomed." Deletion requires a low score **and** orphaned **and** unpinned **and** non-core **and** non-org, all at once. See [`docs/scoring.md`](docs/scoring.md) for the full model and worked numbers. ``` STORE → ACTIVE → DORMANT → FADING → PRUNED ↑ │ └── reactivation ────┘ (only if score=0, orphan, not pinned) ``` Memories can also be promoted to **core** status — structurally important memories that are auto-pinned and never pruned. ## Benchmark Results We've run internal evaluations against the [LoCoMo](https://arxiv.org/abs/2402.06397) long-conversation memory benchmark during development. These are self-reported, run with our own harness (category 5 — adversarial questions with disputed ground truth — excluded), and not independently reproduced, so treat them as directional rather than a verified claim. Reproduction scripts are in [`benchmarks/`](benchmarks/) if you want to run your own numbers. ## Storage backend This package ships one storage backend: an in-memory causal graph (`storage/memory.py`) with optional JSON persistence via `GENESYS_PERSIST_PATH`. No database is required. Additional backends — Postgres/pgvector, FalkorDB, MongoDB, and an Obsidian vault adapter — along with a REST API, OAuth, and multi-user auth, are part of the hosted product at `genesys-api.astrixlabs.ai` and are not included in this repo. Want a different storage backend for the open-source library? Implement the provider protocols in [`storage/base.py`](src/genesys_memory/storage/base.py) and bring your own. ## Configuration Copy `.env.example` to `.env` and set: | Variable | Required | Description | |----------|----------|-------------| | `OPENAI_API_KEY` | Unless `GENESYS_EMBEDDER=local` | Embeddings | | `ANTHROPIC_API_KEY` | No | Enables LLM-based causal inference (consolidation, contradiction detection). Off by default — without it, causal edges only come from edges the caller explicitly declares in `memory_store` plus cosine-similarity linking. | | `GENESYS_EMBEDDER` | No | `openai` (default) or `local` (sentence-transformers, no API key) | | `GENESYS_PERSIST_PATH` | No | JSON file path to persist state across restarts (in-memory otherwise) | | `GENESYS_USER_ID` | No | Default user ID for single-tenant mode | ### Auto-link tuning Auto-linking connects a newly stored memory to semantically similar existing memories. If it is too permissive you get a "hairball" — everything ends up ~2 hops from everything, which destroys traversal scoping. Three knobs bound it: | Variable | Default | Description | |----------|---------|-------------| | `GENESYS_AUTOLINK_MIN_SIMILARITY` | embedder-recommended | Cosine floor to create an auto-link. Explicit value wins over the embedder default. | | `GENESYS_AUTOLINK_MAX_EDGES` | `3` | Max auto-links a single `memory_store` may create. Caps fan-out. | | `GENESYS_AUTOLINK_MAX_NODE_DEGREE` | `10` | Max `auto_link` edges any single node may *accumulate* as a target. Fan-out alone still lets a hub gain one edge per store forever; this caps the hub itself. | The floor is **embedder-aware**: an auto-link is permanent graph structure, so its floor sits *above* the transient recall floor. When `GENESYS_AUTOLINK_MIN_SIMILARITY` is unset, the effective floor is the embedder's recommendation — **0.6 for OpenAI** (`text-embedding-3-small`, whose genuine matches cluster ~0.5+) and **0.45 for local** sentence-transformers (whose genuine matches cluster ~0.2–0.4 but whose noise pairs have been observed at ~0.44, so only near-duplicate content auto-links locally). Any unknown embedder falls back to 0.45. Auto-linking also de-dupes: if a pair is already connected by *any* edge (e.g. a `user_explicit` `caused_by`), no parallel `auto_link related_to` is created. The `possible_conflicts` hint on `memory_store` scans with its **own, lower floor** (`GENESYS_CONFLICT_MIN_SIMILARITY`, defaulting to the recall floor) over a wider window (`GENESYS_CONFLICT_SCAN_K`, default 8) — so tightening the auto-link floor never shrinks conflict detection. ### Recall / relevance floors The same embedder-aware pattern governs recall filtering: | Variable | Default | Description | |----------|---------|-------------| | `GENESYS_RECALL_MIN_SIMILARITY` | embedder-recommended (OpenAI 0.5 / other 0.2) | Cosine floor below which pure vector hits are dropped from `memory_recall`. Keyword hits bypass it. | | `GENESYS_CORE_INJECT_MIN_SIMILARITY` | embedder-recommended (OpenAI 0.45 / other 0.2) | Floor for injecting auto-promoted core memories into recall results. Pinned memories are always injected. | ### Scoring knobs The three-force scoring formula and its lifecycle thresholds are all env-configurable (see [`engine/config.py`](src/genesys_memory/engine/config.py) and [`docs/scoring.md`](docs/scoring.md)): `GENESYS_ACTR_DECAY`, `GENESYS_RELEVANCE_VECTOR_WEIGHT`, `GENESYS_RELEVANCE_KEYWORD_WEIGHT`, `GENESYS_MIN_CONNECTIVITY`, `GENESYS_FORGETTING_THRESHOLD`, the `GENESYS_DORMANCY_*` transition thresholds, and the `GENESYS_CORE_*` promotion weights. See [`.env.example`](.env.example) for all options. ## Built by Genesys is built by [Rishi Meka](https://github.com/rishimeka) at [Astrix Labs](https://astrixlabs.ai). It came out of frustration with re-explaining project context to Claude every session. The goal is the intelligence layer between your LLM and your memory — fully open source. ## Contributing See [CONTRIBUTING.md](CONTRIBUTING.md). ## License [AGPL-3.0-or-later](LICENSE) > **Note:** Genesys releases prior to v0.3.6 were documented as Apache 2.0 in error. The LICENSE file has always contained the AGPLv3 text. From v0.3.6 onward, all documentation correctly references AGPL-3.0-or-later with a Contributor License Agreement.