{
  "base_branch": "origin/main (fetched for this checkpoint)",
  "base_commit": "5740846e07f313aed4bee9038ceb740436b50899",
  "checkpoint_date": "2026-10-25",
  "checks": [
    {
      "area": "math + ecosystem + visual reference",
      "command": "alexneth_geot/tools/verify.py --output-dir /tmp/checkpoint-geot",
      "evidence": "geot-validation.json",
      "status": "PASS",
      "test_methods": 86
    },
    {
      "area": "Research IDE",
      "command": "make -C Research_IDE check",
      "evidence": "research-ide.log",
      "status": "PASS",
      "test_methods": 16
    },
    {
      "area": "Cryptographic Research",
      "breakdown": [
        9,
        29
      ],
      "command": "make -C Cryptographic_Research check",
      "evidence": "cryptographic-research.log",
      "status": "PASS",
      "test_methods": 38
    }
  ],
  "cryptographic_research_entries": 1,
  "edges": [
    {
      "kind": "control",
      "label": "governs development / package entry",
      "source": "foundation",
      "target": "math"
    },
    {
      "kind": "control",
      "label": "governs development / command entry",
      "source": "foundation",
      "target": "integration"
    },
    {
      "kind": "reference",
      "label": "documented motivation; manual review, not code generation",
      "source": "papers",
      "target": "math"
    },
    {
      "kind": "planned",
      "label": "proposed manual promotion of verified artifacts",
      "source": "research_ide",
      "target": "papers"
    },
    {
      "kind": "code",
      "label": "imported primitives under test",
      "source": "math",
      "target": "verification"
    },
    {
      "kind": "code",
      "label": "frozen expected outputs",
      "source": "spec",
      "target": "verification"
    },
    {
      "kind": "code",
      "label": "Hurwitz/CRT/tile imports",
      "source": "math",
      "target": "crypto"
    },
    {
      "kind": "code",
      "label": "explicit local frame profile",
      "source": "spec",
      "target": "crypto"
    },
    {
      "kind": "code",
      "label": "baseline invoked by geometry/acceptance",
      "source": "verification",
      "target": "integration"
    },
    {
      "kind": "code",
      "label": "cross-profile byte checks",
      "source": "spec",
      "target": "integration"
    },
    {
      "kind": "reference",
      "label": "superseded design lineage",
      "source": "historical",
      "target": "vision"
    },
    {
      "kind": "code",
      "label": "independent agents/control/codec APIs in interop",
      "source": "integration",
      "target": "vision"
    },
    {
      "kind": "code",
      "label": "experimental descriptor references in loopback harness",
      "source": "vision",
      "target": "integration"
    },
    {
      "kind": "reference",
      "label": "teaching illustration; no proof implication",
      "source": "walkthrough",
      "target": "papers"
    },
    {
      "kind": "reference",
      "label": "ownership plans and recorded evidence",
      "source": "ecosystem_docs",
      "target": "integration"
    },
    {
      "kind": "code",
      "label": "root verification job",
      "source": "ci",
      "target": "verification"
    },
    {
      "kind": "code",
      "label": "pinned integration job",
      "source": "ci",
      "target": "integration"
    },
    {
      "kind": "code",
      "label": "crypto registry/tests/vectors job",
      "source": "ci",
      "target": "crypto"
    },
    {
      "kind": "code",
      "label": "catalog/library check job",
      "source": "ci",
      "target": "research_ide"
    }
  ],
  "external_repositories": {
    "CubiLoom": {
      "commit": "9abafa43ce4a2fd61c35e2d05479a706e83118c9",
      "git_url": "https://github.com/BioChainAI/CubiLoom.git"
    },
    "FractalOS-runtime": {
      "commit": "e4e1d520631bdcc443428ca6abce719082f5dd02",
      "git_url": "https://github.com/BioChainAI/FractalOS-runtime.git"
    },
    "Kernel-Registry": {
      "commit": "c94efcd43f690fadce8b4be33126bdb699dadbde",
      "git_url": "https://github.com/BioChainAI/Kernel-Registry.git"
    },
    "Manifold-Projection": {
      "commit": "32a8bed5ce5a9ef4409ee9150f6f9911c3fa3c6d",
      "git_url": "https://github.com/BioChainAI/Manifold-Projection.git"
    },
    "PolyShard-Agent": {
      "commit": "094c2856abaac02cdbef64c848fccea6e13cb95f",
      "git_url": "https://github.com/BioChainAI/PolyShard-Agent.git"
    },
    "Polycentric-Orchestrator": {
      "commit": "bc0bbad6d28ebc54dee36b440be2b1db92898805",
      "git_url": "https://github.com/BioChainAI/Polycentric-Orchestrator.git"
    },
    "SHD-CCP-core": {
      "commit": "154685b2cc65ed5120e36ad733c03f550760a09b",
      "git_url": "https://github.com/BioChainAI/SHD-CCP-core.git"
    }
  },
  "packet_cases": 183,
  "paper_catalog_entries": 0,
  "schema": "geometric-labs.repository-checkpoint.v1",
  "sections": [
    {
      "command": "make verify-all",
      "contains": "README.md, AGENTS.md, Makefile, pyproject.toml, LICENSE and .gitignore",
      "file_count": 6,
      "id": "foundation",
      "limits": "Root make verify-all is not a whole-repository test runner.",
      "path": "root",
      "role": "Read the scope, development rules and command entrypoints; package metadata builds only the exact-math src package.",
      "status": "implemented",
      "title": "Project entry and operating rules"
    },
    {
      "command": "Read docs/specification_status.md",
      "contains": "architecture_blueprint.md, specification_status.md, papers/README.md, core/ and series/ placeholders",
      "file_count": 5,
      "id": "papers",
      "limits": "No canonical PDFs are currently tracked in docs/papers/. Uploaded chat files are not repository paper entries.",
      "path": "docs/",
      "role": "Explains mathematical architecture, corrections and pending source-paper intake.",
      "status": "reference",
      "title": "Canonical documentation and paper intake"
    },
    {
      "command": "make -C Research_IDE check",
      "contains": "Browser IDE, paper scaffold/ingestion tool, catalog, SHA lock, walkthrough and operation guide",
      "file_count": 17,
      "id": "research_ide",
      "limits": "CATALOG has 0 papers. Browser saves are manual exports; IDE proof labels do not execute Lean. CLI checks were run; browser UI/CDNs were not exercised.",
      "path": "Research_IDE/",
      "role": "Transform/export research artifacts, file them by paper ID, and validate manifests/catalog consistency.",
      "status": "implemented",
      "title": "Research IDE and paper library"
    },
    {
      "command": "PYTHONPATH=src python3 -c \"import geometric_labs\"",
      "contains": "hurwitz, S5 tree, CRT, tile codec; calibration/, certification/, blockchain/, threading/",
      "file_count": 23,
      "id": "math",
      "limits": "Calibration uses floats; not every named theorem is a formal proof and not every tile form has semantics.",
      "path": "src/geometric_labs/",
      "role": "Reusable mathematical primitives, with integer geometry separated from numerical physical calibration.",
      "status": "implemented",
      "title": "Exact geometry library"
    },
    {
      "command": "make check-vectors",
      "contains": "Local Einstein Tile RFC, vector generator and five golden-vector JSON files",
      "file_count": 7,
      "id": "spec",
      "limits": "Local profile is not a complete universal Codex specification; opaque forms stay opaque.",
      "path": "spec_sync/",
      "role": "Freeze local byte/math examples and detect drift without rewriting expected outputs.",
      "status": "implemented",
      "title": "Local wire profile and golden vectors"
    },
    {
      "command": "make verify-all",
      "contains": "01_accessibility through 05_stream_threading, standalone master, golden-vector tests, original archive",
      "file_count": 24,
      "id": "verification",
      "limits": "40 unittest methods. Archived original runner is intentionally preserved with known defects and excluded from passing targets.",
      "path": "verification/",
      "role": "Exercise exact operations, calibration, certification, holonomy, threading and frozen fixtures.",
      "status": "implemented",
      "title": "Five-pillar reference verification"
    },
    {
      "command": "make -C Cryptographic_Research check",
      "contains": "Registry/tooling, templates, CR-0001 Lamport experiment, vectors; published/archived/ placeholders",
      "file_count": 45,
      "id": "crypto",
      "limits": "Only CR-0001 exists. Its quaternion-walk one-way-function candidate fails by inversion; production authentication is not provided.",
      "path": "Cryptographic_Research/",
      "role": "Study classical security separately from geometric representation and tile transport.",
      "status": "experimental",
      "title": "Cryptographic research line"
    },
    {
      "command": "make -C ecosystem integration",
      "contains": "manifest/, locks/, tools/, contracts/, simulator/, tests/, integration_tests/, environments/, Makefile, workspaces/.gitignore",
      "file_count": 21,
      "id": "integration",
      "limits": "Nested clones are ignored runtime inputs, not vendored source; current replay/authentication is development-only.",
      "path": "ecosystem/",
      "role": "Restore reviewed independent checkouts, gate protocol compatibility and exercise loopback federation.",
      "status": "implemented",
      "title": "Seven-repository integration control"
    },
    {
      "command": "/workspace/.venvs/alexneth-geot/bin/python ecosystem/experiments/alexneth_geot/tools/verify.py --output-dir /tmp/geot-checkpoint",
      "contains": "src/alexneth_geot/, test suites, supplied research originals, CPU requirements, tools and reports",
      "file_count": 33,
      "id": "vision",
      "limits": "2,506,558 default parameters; untrained. Remote visual-schema enforcement, CubiLoom and tensor HAL remain incomplete.",
      "path": "ecosystem/experiments/alexneth_geot/",
      "role": "Multiscale image features \u2192 fold3 \u2192 64-cell Euclidean/Lorentz routing \u2192 class and semantic outputs \u2192 typed sidecar.",
      "status": "experimental",
      "title": "AlexNet-H/GEOT RFC 0.2 CPU reference"
    },
    {
      "command": "python3 ecosystem/experiments/alexnet_get/tools/plan.py validate",
      "contains": "Implementation proposal, variants, proposed file map, source inventory and planning CLI",
      "file_count": 9,
      "id": "historical",
      "limits": "Planning validation is not training or implemented model functionality.",
      "path": "ecosystem/experiments/alexnet_get/",
      "role": "Preserve the earlier design and its assumptions; directs new work to alexneth_geot.",
      "status": "reference",
      "title": "Earlier AlexNet planning scaffold"
    },
    {
      "command": "Read ecosystem/docs/status/ALEXNETH_GEOT_RESTRUCTURE.md",
      "contains": "Plans, status reports, preservation digests, historical evidence, resources/BioChainAI_Architecture.md and two flowchart PNGs",
      "file_count": 34,
      "id": "ecosystem_docs",
      "limits": "Historical reports describe their own revisions; they are not live health dashboards. PNG diagrams are references, not executable integrations.",
      "path": "ecosystem/docs/ and ecosystem/evidence/",
      "role": "Record design intent, ownership, implementation milestones and command evidence.",
      "status": "reference",
      "title": "Ecosystem architecture and evidence"
    },
    {
      "command": "Open the HTML locally with its required assets available",
      "contains": "geometric_engine_8_step_walkthrough.html",
      "file_count": 1,
      "id": "walkthrough",
      "limits": "Pedagogical simulation with external browser assets; not the vision model, Research IDE or proof engine.",
      "path": "interactive/",
      "role": "Teach the geometric-engine cycle and visual relationships through a standalone browser artifact.",
      "status": "reference",
      "title": "Interactive geometric walkthrough"
    },
    {
      "command": "Inspect .github/workflows/",
      "contains": "verify_15_lemmas.yml, ecosystem-integration.yml, research-ide.yml, cryptographic-research.yml",
      "file_count": 4,
      "id": "ci",
      "limits": "No dedicated Torch/AlexNet CI lane currently runs the additional 22 model/research tests. Workflow definitions inspected; GitHub run outcomes not queried.",
      "path": ".github/workflows/",
      "role": "Run independent math, ecosystem, library and crypto checks on configured Python versions.",
      "status": "implemented",
      "title": "Automated verification workflows"
    }
  ],
  "snapshot_scope": "all tracked paths at base_commit, before checkpoint files; excludes ignored dependencies/environments and Git internals",
  "snapshot_tracked_files": 229,
  "unique_test_methods": 140,
  "viewer_format": "new neutral repository-map schema; not claimed importable as the Research IDE Lean bundle"
}