Athena MCP Server
The Athena MCP Server is a comprehensive AI/ML orchestration, knowledge management, and scientific control platform. It provides MCP tools for:
Core State & Knowledge Graph: Hydrate and manage session state; register and resolve canonical identities; ingest text with coordinate assignments; build and navigate typed JSPACE graphs (add edges/hyperedges, compute paths, propagate alarms); search registry; commit deltas with stale-version rejection.
Coordinate Transforms & Topology: Register and apply coordinate transforms; record holonomy; view transform matrices; manage topology changes (apply, rollback, project to JSPACE) with transactional projections and sagas.
Multi-Agent Coordination & Collective Control: Plan and restructure collective geometries (HIVE/SWARM/PACK etc.); allocate tasks based on demand, capability, and capacity; evaluate organization configurations; health checks; quorum selection; counterfactual simulation; form n-way simplices; match agents for help.
Causal Inference & Scientific Tools (V15): Structural reliability calibration; history-safe sequential TMLE cross-fitting; sequential DR policy evaluation; joint Gaussian belief updates and control; approximation-error transport; multistage TV-DRO robust planning.
Learning & Adaptation: Contextual bandit selection/observation; Bayesian contextual prediction/update; diffusion coefficient learning; regime geometry learning; transition modeling; pheromone/stigmergy reinforcement with multiscale adaptive fields.
Policy & Rollout: Online policy learning, scoring, state retrieval, and rollback; simulate multi-step rollouts; counterfactual organization ranking without topology commits.
Credit Assignment & Experiments: Assign intervention credit with uncertainty; delayed credit with temporal discount; interaction credit contrasts; design experiments via expected information gain.
Failure Resilience: Register, evolve, and match failure antibodies; execute regression tests; record antibody outcomes; propagate dependency alarms.
Deployment & Verification: Generate and validate deployment manifests; plan activation; assess canaries; verify receipts; evaluate promotion readiness and verify via GitHub checks.
Resource & Budget Management: Record and summarize budgets; schedule tasks to workers under budget constraints; multiperiod beam-search scheduling; observe worker costs.
Output & Emission: Crystallize and finalize outputs with coordinate indexing; verify emissions via SHA-256; emit agent telemetry events.
Miscellaneous Utilities: Artifact lifecycle management; Pareto frontier computation; bridge accounting; elder authority ranking; mutation management; witness cell execution; RGO calibration and observation.
Integrates with Git for versioned crystal lattice storage and tracking changes to the organism.
Integrates with GitHub for hosting the manuscript-being main brain repository and version control.
Integrates with Google Docs as a medium for the live slow-form self of the nervous system, enabling document-based interaction.
Click on "Install Server".
Wait a few minutes for the server to deploy. Once ready, it will show a "Started" state.
In the chat, type
@followed by the MCP server name and your instructions, e.g., "@Athena MCP Servernavigate to the Square (Earth) lobe and show its structure"
That's it! The server will respond to your query, and you can continue using it as needed.
Here is a step-by-step guide with screenshots.
ATHENA Canonical MCP v3.4 — AΩR × Collective V1–V15 × Operational Organism × Deployment.2
ATHENA is an executable Git/MCP developmental substrate. The current runtime composes canonical identity/versioning, typed JSPACE, SCALE, KC144/polycoordinates, AOR/Y1 developmental routing, Collective V1–V15 science/control layers, restart-safe state foundation, prompt/frontier and rehydration loops, Message Board/cohesion/party coordination, campaign/life/game organs, bounded symbolic/mythic/bionano kernels, Deployment.2 external-control planning, versioned release distribution, and exact-head qualification through a host-bound GitHub verifier.
Current executable coordinates:
package:
athena-canonical-mcp 3.4.0;live architecture:
ATHENA.RUNTIME.UNIFIED.11;runtime root: one composed
Server;Collective ladder: V1–V15;
current Collective coordinate:
COLLECTIVE_CALIBRATED=<SR,XT,XD,CJ,AT,MD,L>;inherited V14 coordinate:
COLLECTIVE_SYNTHESIS=<JB,SE,JE,DR,RP,AZ,MR,L>;deployment frontier:
ATHENA.DEPLOYMENT.2;authority: Y1
athena_claim_*;science-shadow namespace:
athena_discovery_claim_*;governance:
SCHEMA.2 / SELFTEST.1 / SURFACE.2 / COMPOSITION.2 / PROMOTION.2;trusted verifier:
GITHUB_PROMOTION_VERIFIER.1;trusted qualification:
syntax ∧ unit ∧ critical-invariants ∧ smoke → promotion-qualification.
Constitutional braid
AOR = WHAT is developmentally eligible.
COLLECTIVE = HOW bounded science/inference/control capacity is organized.
Y1 = canonical claim authority.
OPERATIONAL ORGANISM = prompt/frontier + rehydration/successor/handoff + Message Board/cohesion/party + campaign/life/game + symbolic/mythic/bionano organs.
DEPLOYMENT.2 = separately typed external-control planning / validation / canary / receipt verification.
PROMOTION.2 = caller-bound readiness + separately trusted qualification.
Core firewalls:
UNKNOWN != 0
CONSENSUS != EVIDENCE
PREDICTION / POSTERIOR / PLAN != OBSERVATION / TRUTH / EXECUTION
MODEL_GRAPH != CANONICAL_JSPACE_GRAPH
CALLER_ATTESTATION != TRUSTED_EXTERNAL_VERIFICATION
ATTESTED_READY != QUALIFIED
COLLECTIVE_CALIBRATED != DEPLOYMENT_AUTHORITY != COORDINATION_AUTHORITY.
Related MCP server: Resonant Mind
Runtime cycle
HYDRATE → RECONRUN/OMEGA → MEMORY → SX → RAG → HUG → GAP → FIELD → MEASURE/CALIBRATE → Y1/AOR → COLLECTIVE(V1–V15) → AUTHORIZED EXECUTION → VERIFY → LEARN → SUCCESSOR → COMPLETE.
CYCLE stops at typed missing prerequisites instead of fabricating execution, evidence, workers, tests or authority.
Collective V1–V14 lineage
V1–V9 provide organization, memory, empirical learning, ecology, causal science, active discovery, dual control, finite belief and Gaussian/continuous inference. V10–V13 add bounded GP world models, adaptation, joint hypermodel uncertainty, FCI-lite/longitudinal causal estimation and robust resources. V14 adds finite joint factor belief, bootstrap structural ensembles, joint decision/information value, sequential DR policy value, robust policy geometry, decision-relative GP zoom and finite two-stage recourse.
Resource: athena://collective/v14.
V14 remains historical/currently callable science substrate; V15 does not silently rename it.
V15 — calibrated continuous scientific control
SR — externally witnessed structural reliability
athena_structural_reliability_calibrate fits a weighted monotone isotonic mapping from bootstrap structural support to externally labelled correctness. Diagnostic predictions are out-of-fold.
Identical support coordinates are aggregated before PAV; the final mapping uses an explicit right-continuous monotone step convention with endpoint extension.
IDENTICAL_CALIBRATION_COORDINATE != MULTIPLE_FITTED_VALUES.
OUT_OF_FOLD_ISOTONIC_RELIABILITY != CAUSAL_GRAPH_POSTERIOR.
CALIBRATION_LABELS_REQUIRE_EXTERNAL_WITNESS.
Calibration never writes JSPACE.
XT — history-safe cross-fitted sequential TMLE
athena_longitudinal_tmle_crossfit is bounded to binary two-timepoint histories X → A1 → L1 → A2 → Y. Nuisance and targeting models are trained without each held-out evaluation fold.
The stage-2 pseudo-outcome preserves each row's observed A1,L1 while intervening only on A2; stage-1 intervention/evaluation occurs later.
STAGE2_PSEUDO_OUTCOME_PRESERVES_OBSERVED_A1_L1_BEFORE_STAGE1_INTERVENTION.
Named treatment/intermediate/outcome fields cannot be smuggled into baseline covariates, and baseline values must be finite.
CROSS_FITTED_TWO_TIMEPOINT_TMLE != GENERAL_LONGITUDINAL_TMLE_THEOREM.
CROSS_FITTING != IDENTIFICATION.
Declared latent confounding fails closed.
XD — history-safe cross-fitted sequential DR policy value
athena_sequential_dr_policy_crossfit evaluates deterministic two-timepoint policies with out-of-fold sequential AIPW scores.
Decision-time information sets are explicit:
A1_POLICY_FEATURES = baseline
A2_POLICY_FEATURES = baseline + {A1,L1}.
A stage-1 policy therefore cannot read L1, A2, or Y; a stage-2 policy cannot read A2 or Y.
DECISION_TIME_HISTORY != FULL_ROW_STATE.
A1_POLICY_USES_BASELINE_ONLY__A2_POLICY_USES_BASELINE_A1_L1_ONLY.
CROSS_FITTED_SEQUENTIAL_DR != GENERAL_OFF_POLICY_CAUSAL_VALUE.
Policy value remains PLAN_ONLY.
CJ — strict continuous Gaussian joint belief/control
athena_joint_gaussian_update implements the exact finite-dimensional update for X~N(mu,Sigma) and a declared linear Gaussian observation y=h^T X+epsilon.
Unknown observation/action coefficient keys are rejected rather than silently projected to zero; means, covariances and control parameters must be finite.
UNKNOWN_COEFFICIENT != ZERO_COEFFICIENT.
NONFINITE_NUMERIC_STATE != MODEL_COORDINATE.
LINEAR_GAUSSIAN_UPDATE != GENERAL_CONTINUOUS_JOINT_BAYES.
athena_joint_gaussian_control propagates linear action utilities through that Gaussian belief and retains expected utility, lower-tail Normal CVaR, cost and Pareto state.
GAUSSIAN_LINEAR_CONTROL != GENERAL_BELIEF_MDP.
AT — local/global approximation-error transport
athena_approx_error_transport validates a caller-declared Lipschitz error envelope against supplied witness pairs.
The unrestricted mathematical envelope remains:
e_global(x) <= min_i [e_i + L ||x-x_i||].
But V15 keeps three coordinates distinct:
geometrically nearest witness;
tightest global envelope witness;
tightest radius-eligible local transport witness when a radius is declared.
A local radius certificate uses only eligible witnesses; the unrestricted global envelope is reported separately.
GEOMETRIC_NEAREST_WITNESS != TIGHTEST_ERROR_ENVELOPE_WITNESS.
GLOBAL_ENVELOPE != RADIUS_ELIGIBLE_LOCAL_CERTIFICATE.
DECLARED_LIPSCHITZ_ERROR_ENVELOPE != EMPIRICAL_GLOBAL_ERROR_TRUTH.
TRANSPORT_CERTIFICATE_CONDITIONAL_ON_LIPSCHITZ_BOUND.
MD — strict finite-horizon rectangular TV-DRO
athena_multistage_tv_dro_plan solves exact backward induction for supplied finite states/actions and state-action rectangular total-variation ambiguity:
V_t(s)=max_a[r(s,a)+gamma min_{q:TV(q,p_sa)<=rho} q^T V_{t+1}].
State/action identities, rewards and transitions must be finite and declared. Unknown successor/state coordinates fail closed instead of being ignored.
UNKNOWN_STATE_COORDINATE != UNUSED_METADATA.
NONFINITE_TRANSITION != PROBABILITY_MODEL.
Certificate:
EXACT_DYNAMIC_PROGRAM_FOR_SUPPLIED_FINITE_RECTANGULAR_TV_AMBIGUITY_MODEL.
RECTANGULAR_TV_ROBUST_MDP != GENERAL_MULTISTAGE_DRO.
Resource: athena://collective/v15.
Specs: spec/COLLECTIVE_RUNTIME_V15.md, spec/ATHENA_UNIFIED_V15.md, spec/ARCHITECTURE_V15.md, spec/MIGRATION_V15.md.
V15 release-overlay holonomy
Ω15 discovered that one semantic runtime coordinate can exist as multiple import-time Python projections: module attributes, values/functions imported by value, copied resource lists, and derived URI sets.
The V15 overlay therefore synchronizes initialize/HTTP server identity, manifest builders, MAXDEV fallback, integrity resources, and final AOR development resources explicitly.
RELEASE_ATTRIBUTE_UPDATE != IMPORTED_VALUE_SNAPSHOT_UPDATE.
MODULE_ATTRIBUTE_ADVANCE != IMPORTED_FUNCTION_SNAPSHOT_ADVANCE.
SOURCE_RESOURCE_ADVANCE != COPIED_RESOURCE_REGISTRY_ADVANCE.
Tool manifest, athena://runtime/unified-manifest, and athena://manifest are regression-tested as one current release coordinate.
Release critical selectors are also checked against real repository test files:
ZERO_TEST_SELECTION != PROOF.
Deployment.2 braid
Live master evolved Deployment.2 while Ω15 was in flight. Ω15 therefore uses a true two-parent Git braid and composes the initializer as:
V14 → Deployment.2 → V15 release overlay.
Deployment tools include athena_deployment_manifest, athena_deployment_validate, athena_deployment_activation_plan, athena_deployment_assess_canary, and athena_deployment_verify_receipt.
Deployment resources include athena://deployment, athena://deployment/security, athena://deployment/rollout, and athena://deployment/evidence.
Deployment is external-control state; planning or validating a deployment is not proof that production infrastructure changed.
Trusted promotion topology
athena_promotion_evaluate remains caller-bound and can reach ATTESTED_READY from exact-head caller packets.
athena_promotion_verify_github(git_head) is the host-bound route. Repository, API root, Actions run, token, trusted app and required checks are not caller-selected MCP arguments. One coherent Actions suite must contain successful {syntax, unit, critical-invariants, smoke} checks for one exact head before promotion-qualification can mint a trusted receipt.
CHECKS_FROM_DIFFERENT_SUITES_OR_RUNS != ONE_TRUSTED_QUALIFICATION.
VERIFIER_IMPLEMENTED != HEAD_QUALIFIED.
Release distribution
V3.2 and V3.3 manifests/notes/frozen regressions remain historical evidence for their exact bytes. V3.4 owns the current executable distribution workflow.
OLD_RELEASE_RECEIPT != NEW_RELEASE_EVIDENCE.
HISTORICAL_PUBLICATION_AUTHORITY != CURRENT_RELEASE_IDENTITY.
Release qualification:
syntax ∧ unit ∧ critical-invariants ∧ smoke → promotion-qualification → package-readiness.
The V3.4 critical lane explicitly executes hardened V15 calibration geometry, adversarial input/temporal/numeric membranes, surface holonomy, Deployment.2 composition and trust boundaries. A distribution receipt certifies exact repository/package/distribution state. It is not empirical truth, causal proof, treatment authorization, production deployment, Y1 authority or GitHub administrative hardening.
Historical architecture
ARCHITECTURE.md / MIGRATION.md preserve the V13/UNIFIED.9 transition. V14 history remains in spec/ARCHITECTURE_V14.md and spec/MIGRATION_V14.md. Current V15 composition/migration are versioned separately, preserving the actual succession rather than rewriting prior evidence.
Run
python -m athena_mcp --db ./state/athena.db
Package: athena-canonical-mcp 3.4.0
MCP protocol revision: 2025-11-25.
Maintenance
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