chore: repoint legacy repository URLs (org migration 2026-09-22)

cogant/docs/evaluation/GNN_VALIDATION_REPORT.md

@@ -14,9 +14,9 @@ Date: 2026-06-12
 
 ## Spec Source
 
-- Primary: https://github.com/ActiveInferenceInstitute/GeneralizedNotationNotation/blob/main/doc/gnn/gnn_syntax.md
-- Type-checker: https://github.com/ActiveInferenceInstitute/GeneralizedNotationNotation/blob/main/src/type_checker/checker.py
-- Examples: https://github.com/ActiveInferenceInstitute/GeneralizedNotationNotation/tree/main/input/gnn_files/discrete/
+- Primary: https://github.com/ActiveInferenceInstitute/Generalized_Notation_Notation/blob/main/doc/gnn/gnn_syntax.md
+- Type-checker: https://github.com/ActiveInferenceInstitute/Generalized_Notation_Notation/blob/main/src/type_checker/checker.py
+- Examples: https://github.com/ActiveInferenceInstitute/Generalized_Notation_Notation/tree/main/input/gnn_files/discrete/
 
 ## Compliance Check
 

cogant/examples/demo_server.py

@@ -74,7 +74,7 @@
 
 # Public documentation URL. ``GET /docs`` redirects here when FastAPI's
 # built-in OpenAPI UI is not available.
-COGANT_DOCS_URL = "https://github.com/ActiveInferenceInstitute/GeneralizedNotationNotation"
+COGANT_DOCS_URL = "https://github.com/ActiveInferenceInstitute/Generalized_Notation_Notation"
 
 logger = logging.getLogger("cogant.demo_server")
 

cogant/py/cogant/__init__.py

@@ -3,7 +3,7 @@
 Translates software repositories into Generalized Notation Notation (GNN) — the
 Active Inference Institute's structured state-space / process-model notation
 (NOT graph neural networks). See
-https://github.com/ActiveInferenceInstitute/GeneralizedNotationNotation.
+https://github.com/ActiveInferenceInstitute/Generalized_Notation_Notation.
 
 The output of a COGANT run is a GNN-compatible model bundle: hidden states,
 observation modalities, actions, policies, transitions, likelihoods,

cogant/py/cogant/schemas/gnn_export.py

@@ -2,7 +2,7 @@
 GNNExportBundle: Comprehensive export format for Generalized Notation Notation (GNN).
 
 "GNN" here refers to the Active Inference Institute's Generalized Notation Notation
-(https://github.com/ActiveInferenceInstitute/GeneralizedNotationNotation), a structured
+(https://github.com/ActiveInferenceInstitute/Generalized_Notation_Notation), a structured
 notation for Active Inference state-space and process models — not graph neural networks.
 
 Packages all analysis artifacts (graph structure, semantic mappings, state space,

cogant/pyproject.toml

@@ -64,7 +64,7 @@ analytics = [
     "duckdb>=0.9",
 ]
 upstream = [
-    "generalized-notation-notation @ git+https://github.com/ActiveInferenceInstitute/GeneralizedNotationNotation.git@11a89f0615f1e48ddacca58d1bcf3c5092b1b055",
+    "generalized-notation-notation @ git+https://github.com/ActiveInferenceInstitute/Generalized_Notation_Notation.git@11a89f0615f1e48ddacca58d1bcf3c5092b1b055",
 ]
 all = [
     "pytest>=7.4.0",

cogant/rust/cogant-gnn/src/lib.rs

@@ -1,7 +1,7 @@
 //! GNN export and formatting.
 //!
 //! "GNN" in COGANT refers to the Active Inference Institute's Generalized
-//! Notation Notation (https://github.com/ActiveInferenceInstitute/GeneralizedNotationNotation),
+//! Notation Notation (https://github.com/ActiveInferenceInstitute/Generalized_Notation_Notation),
 //! a structured notation for Active Inference state-space and process models —
 //! NOT graph neural networks. This crate provides functionality for exporting
 //! program graphs into that notation.

cogant/tests/unit/test_gnn_spec_compliance.py

@@ -7,7 +7,7 @@
 2. Connections section uses bare variable names without parentheses.
 3. No duplicate ``## Connections`` header (COGANT extended section renamed).
 
-Spec source: https://github.com/ActiveInferenceInstitute/GeneralizedNotationNotation
+Spec source: https://github.com/ActiveInferenceInstitute/Generalized_Notation_Notation
              doc/gnn/reference/gnn_syntax.md v2.0.0
 Upstream type-checker: src/type_checker/checker.py
 

manuscript/01_introduction.md

@@ -6,7 +6,7 @@ The contribution is best read as an **evidence compiler** rather than as a new n
 
 ## Terminology: "GNN" in this manuscript
 
-In this manuscript, **GNN** refers to the Active Inference Institute's **Generalized Notation Notation** ([repository](https://github.com/ActiveInferenceInstitute/GeneralizedNotationNotation)) [@friedman2024gnn], a structured notation for state-space and process models---*not* graph neural networks. COGANT translates source code into this notation, producing program-graph and state-space artifacts (state space, observation modalities, actions/policies, likelihood structure, preferences, time settings, parameterization) that downstream tools can consume. Those downstream tools include graph neural network training pipelines, which can ingest the exported tensor views of the program graph, but such neural networks are a *consumer* of COGANT's output, not its output format. Where the manuscript discusses graph neural networks as related work, it uses the phrase "graph neural networks" in full; the acronym GNN always refers to Generalized Notation Notation.
+In this manuscript, **GNN** refers to the Active Inference Institute's **Generalized Notation Notation** ([repository](https://github.com/ActiveInferenceInstitute/Generalized_Notation_Notation)) [@friedman2024gnn], a structured notation for state-space and process models---*not* graph neural networks. COGANT translates source code into this notation, producing program-graph and state-space artifacts (state space, observation modalities, actions/policies, likelihood structure, preferences, time settings, parameterization) that downstream tools can consume. Those downstream tools include graph neural network training pipelines, which can ingest the exported tensor views of the program graph, but such neural networks are a *consumer* of COGANT's output, not its output format. Where the manuscript discusses graph neural networks as related work, it uses the phrase "graph neural networks" in full; the acronym GNN always refers to Generalized Notation Notation.
 
 ## How to read this document
 

manuscript/references.bib

@@ -366,7 +366,7 @@ @misc{friedman2024gnn
   title        = {Generalized Notation Notation (GNN): A structured notation for Active Inference state-space and process models},
   author       = {{Active Inference Institute}},
   year         = {2024},
-  howpublished = {\url{https://github.com/ActiveInferenceInstitute/GeneralizedNotationNotation}},
+  howpublished = {\url{https://github.com/ActiveInferenceInstitute/Generalized_Notation_Notation}},
   note         = {Open-source specification and reference implementation; not to be confused with graph neural networks}
 }