Canonicalize pyAMICA URLs to pAMICA (#185)

* Canonicalize pyAMICA URLs to pAMICA

The GitHub repo was renamed sccn/pyAMICA -> sccn/pAMICA, moving the Pages site to https://eeglab.org/pAMICA/ and 404-ing the old eeglab.org/pyAMICA doc links (including the README docs badge shown on PyPI). Sweep live references /pyAMICA -> /pAMICA across docs URLs, GitHub repo URLs, codecov, the badge label, the resolver _REPO default, and git clone/cd snippets. Historical changelog prose (the 0.2.0 entry's then-current sccn/pyAMICA) is preserved; .context/ archive left as-is. All new URLs verified to return 200. Closes #184.

* Rebuild paper.pdf [skip ci]

---------

Co-authored-by: github-actions[bot] <github-actions[bot]@users.noreply.github.com>

Author: neuromechanist

.zenodo.json

@@ -35,7 +35,7 @@
   ],
   "related_identifiers": [
     {
-      "identifier": "https://eeglab.org/pyAMICA/",
+      "identifier": "https://eeglab.org/pAMICA/",
       "relation": "isDocumentedBy",
       "scheme": "url",
       "resource_type": "publication-softwaredocumentation"

CITATION.cff

@@ -32,8 +32,8 @@ authors:
 version: 0.2.1
 date-released: "2026-07-18"
 license: BSD-3-Clause
-repository-code: "https://github.com/sccn/pyAMICA"
-url: "https://eeglab.org/pyAMICA/"
+repository-code: "https://github.com/sccn/pAMICA"
+url: "https://eeglab.org/pAMICA/"
 keywords:
   - AMICA
   - independent component analysis

CONTRIBUTING.md

@@ -9,7 +9,7 @@ standard rather than to "it converges."
 ## Getting help and reporting issues
 
 - **Questions, bugs, and feature requests:** please open an issue on the
-  [GitHub issue tracker](https://github.com/sccn/pyAMICA/issues).
+  [GitHub issue tracker](https://github.com/sccn/pAMICA/issues).
 - When reporting a bug, include the pamica version, platform, device
   (CPU/CUDA/MPS/MLX), precision (float32/float64), and a minimal example.
 
@@ -19,8 +19,8 @@ pamica uses [UV](https://docs.astral.sh/uv/) for environment and dependency
 management.
 
 ```bash
-git clone https://github.com/sccn/pyAMICA.git
-cd pyAMICA
+git clone https://github.com/sccn/pAMICA.git
+cd pAMICA
 uv sync                 # install the project and dependencies
 uv run pytest           # run the test suite
 ```

README.md

@@ -1,9 +1,9 @@
 # pAMICA: Adaptive Mixture ICA
 
-[![CI](https://github.com/sccn/pyAMICA/actions/workflows/ci.yml/badge.svg)](https://github.com/sccn/pyAMICA/actions/workflows/ci.yml)
-[![codecov](https://codecov.io/gh/sccn/pyAMICA/branch/main/graph/badge.svg)](https://codecov.io/gh/sccn/pyAMICA)
+[![CI](https://github.com/sccn/pAMICA/actions/workflows/ci.yml/badge.svg)](https://github.com/sccn/pAMICA/actions/workflows/ci.yml)
+[![codecov](https://codecov.io/gh/sccn/pAMICA/branch/main/graph/badge.svg)](https://codecov.io/gh/sccn/pAMICA)
 [![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.21312148.svg)](https://doi.org/10.5281/zenodo.21312148)
-[![Docs](https://img.shields.io/badge/docs-eeglab.org%2FpyAMICA-blue)](https://eeglab.org/pyAMICA/)
+[![Docs](https://img.shields.io/badge/docs-eeglab.org%2FpAMICA-blue)](https://eeglab.org/pAMICA/)
 
 Python (PyTorch) implementation of Adaptive Mixture Independent Component Analysis
 (AMICA) that reproduces the reference Fortran implementation within numerical
@@ -14,7 +14,7 @@ in EEGLAB.
 
 Single-model results match the Fortran reference (Hungarian-matched component correlation ~ 0.998
 on well-determined data, Newton disabled); see the
-[documentation](https://eeglab.org/pyAMICA/) for validation details and the
+[documentation](https://eeglab.org/pAMICA/) for validation details and the
 backend-selection guide.
 
 ## Overview
@@ -33,8 +33,8 @@ AMICA (Adaptive Mixture ICA) is an advanced blind source separation algorithm th
 The canonical environment is [uv](https://docs.astral.sh/uv/):
 
 ```bash
-git clone https://github.com/sccn/pyAMICA.git
-cd pyAMICA
+git clone https://github.com/sccn/pAMICA.git
+cd pAMICA
 uv sync                     # install dependencies into a managed venv
 uv run pytest               # optional: run the tests
 ```
@@ -95,7 +95,7 @@ The NumPy reference backend keeps a JSON-driven command-line interface:
 python -m pamica.numpy_impl.cli params.json --outdir results
 ```
 
-See the [documentation](https://eeglab.org/pyAMICA/) for the full API, the
+See the [documentation](https://eeglab.org/pAMICA/) for the full API, the
 parameter reference, and the backend-selection and validation guides.
 
 ## Citation

docs/api/native-backend.md

@@ -44,7 +44,7 @@ asset and caches it, so later runs are offline:
   it has passed its checksum; a failed or tampered download never runs.
 - **Platforms:** prebuilt binaries are attached to each release for macOS arm64,
   Linux x64, Linux arm64 and Windows x64. Windows arm64 has no native Fortran
-  toolchain yet ([#173](https://github.com/sccn/pyAMICA/issues/173)); it maps to
+  toolchain yet ([#173](https://github.com/sccn/pAMICA/issues/173)); it maps to
   the x64 binary, which runs under Windows 11 ARM's x64 emulation.
 
 Install the binary explicitly (for example to pre-populate the cache in an

docs/api/viz.md

@@ -15,7 +15,7 @@ mutating pyplot's global state.
   probable model at each timepoint.
 A per-component scalp-topography plot is not included yet: deriving source
 activations from a loaded `AmicaOutput` depends on an unsettled `W` convention
-question, tracked in [#159](https://github.com/sccn/pyAMICA/issues/159).
+question, tracked in [#159](https://github.com/sccn/pAMICA/issues/159).
 
 ```python
 from pamica import plot_pmi_heatmap, plot_model_probability

docs/changelog.md

@@ -1,7 +1,7 @@
 # Changelog
 
 Release notes are also published on the
-[GitHub releases page](https://github.com/sccn/pyAMICA/releases).
+[GitHub releases page](https://github.com/sccn/pAMICA/releases).
 
 ## 0.2.1
 

docs/development/contributing.md

@@ -1,15 +1,15 @@
 # Contributing
 
 Contributions are welcome. This page summarizes the development workflow; see the
-full [CONTRIBUTING](https://github.com/sccn/pyAMICA/blob/main/CONTRIBUTING.md)
-and [Code of Conduct](https://github.com/sccn/pyAMICA/blob/main/CODE_OF_CONDUCT.md)
+full [CONTRIBUTING](https://github.com/sccn/pAMICA/blob/main/CONTRIBUTING.md)
+and [Code of Conduct](https://github.com/sccn/pAMICA/blob/main/CODE_OF_CONDUCT.md)
 in the repository root.
 
 ## Development setup
 
 ```bash
-git clone https://github.com/sccn/pyAMICA.git
-cd pyAMICA
+git clone https://github.com/sccn/pAMICA.git
+cd pAMICA
 uv sync                 # install the project and dependencies
 uv run pytest           # run the test suite
 ```
@@ -27,5 +27,5 @@ uv run pytest           # run the test suite
 ## Reporting issues and getting help
 
 Please open an issue on the
-[GitHub issue tracker](https://github.com/sccn/pyAMICA/issues) for bug
+[GitHub issue tracker](https://github.com/sccn/pAMICA/issues) for bug
 reports, feature requests, and questions.

docs/getting-started.md

@@ -8,8 +8,8 @@ management.
 ### From source
 
 ```bash
-git clone https://github.com/sccn/pyAMICA.git
-cd pyAMICA
+git clone https://github.com/sccn/pAMICA.git
+cd pAMICA
 uv sync            # install the project and its dependencies into .venv
 ```
 

mkdocs.yml

@@ -1,16 +1,16 @@
 # pAMICA documentation (MkDocs Material).
 # Deployed to GitHub Pages by .github/workflows/docs.yml. The repo lives at
-# github.com/sccn/pyAMICA, whose project Pages inherit the sccn org Pages custom
-# domain (eeglab.org) at the /pyAMICA subpath, so the site is served at
-# https://eeglab.org/pyAMICA/. Links are relative so the build is location-independent.
+# github.com/sccn/pAMICA, whose project Pages inherit the sccn org Pages custom
+# domain (eeglab.org) at the /pAMICA subpath, so the site is served at
+# https://eeglab.org/pAMICA/. Links are relative so the build is location-independent.
 
 site_name: pAMICA Documentation
-site_url: https://eeglab.org/pyAMICA/
+site_url: https://eeglab.org/pAMICA/
 site_description: Python (PyTorch) implementation of Adaptive Mixture ICA (AMICA) with Fortran parity and GPU/MPS/CPU support.
 site_author: Seyed Yahya Shirazi
 
-repo_url: https://github.com/sccn/pyAMICA/
-repo_name: sccn/pyAMICA
+repo_url: https://github.com/sccn/pAMICA/
+repo_name: sccn/pAMICA
 edit_uri: edit/main/docs/
 
 theme: