docs: audit-driven URL fixes (workspace phase)

CITATIONS.md

@@ -1,9 +1,9 @@
 # Citations & References
 
 The bibtex entries for **PyAutoFit** and its affiliated software packages can be found
-[here](https://github.com/rhayes777/PyAutoFit/blob/main/files/citations.bib), with example text for citing **PyAutoFit**
-in [.tex format here](https://github.com/rhayes777/PyAutoFit/blob/main/files/citation.tex) format here and
-[.md format here](https://github.com/rhayes777/PyAutoFit/blob/main/files/citations.md).
+[here](https://github.com/PyAutoLabs/PyAutoFit/blob/main/files/citations.bib), with example text for citing **PyAutoFit**
+in [.tex format here](https://github.com/PyAutoLabs/PyAutoFit/blob/main/files/citation.tex) format here and
+[.md format here](https://github.com/PyAutoLabs/PyAutoFit/blob/main/files/citations.md).
 
 As shown in the examples, we would greatly appreciate it if you mention **PyAutoFit** by name and include a link to our GitHub page!
 

CLAUDE.md

@@ -68,7 +68,7 @@ ls failed/
    ```yaml
    autofit:
    - ScriptName  # Reason it cannot run yet
-   - ScriptName  # bug https://github.com/rhayes777/PyAutoFit/issues/NNN
+   - ScriptName  # bug https://github.com/PyAutoLabs/PyAutoFit/issues/NNN
    ```
    Scripts with a bug link or the word "bug"/"issue"/"fix" in the comment are flagged as `[TODO - should run after a future PR]` in the output.
 

CODE_OF_CONDUCT.md

@@ -301,7 +301,7 @@ the situation is not yet resolved.
 
 ## License
 
-This code of conduct has been adapted from [*NUMFOCUS code of conduct*](https://github.com/numfocus/numfocus/blob/main/manual/numfocus-coc.md#the-short-version),
-which is adapted from numerous sources, including the [*Geek Feminism wiki, created by the Ada Initiative and other volunteers, which is under a Creative Commons Zero license*](http://geekfeminism.wikia.com/wiki/Conference_anti-harassment/Policy), the [*Contributor Covenant version 1.2.0*](http://contributor-covenant.org/version/1/2/0/), the [*Bokeh Code of Conduct*](https://github.com/bokeh/bokeh/blob/main/CODE_OF_CONDUCT.md), the [*SciPy Code of Conduct*](https://github.com/jupyter/governance/blob/main/conduct/enforcement.md), the [*Carpentries Code of Conduct*](https://docs.carpentries.org/topic_folders/policies/code-of-conduct.html#enforcement-manual), and the [*NeurIPS Code of Conduct*](https://neurips.cc/public/CodeOfConduct).
+This code of conduct has been adapted from [*NUMFOCUS code of conduct*](https://numfocus.org/code-of-conduct),
+which is adapted from numerous sources, including the [*Geek Feminism wiki, created by the Ada Initiative and other volunteers, which is under a Creative Commons Zero license*](http://geekfeminism.wikia.com/wiki/Conference_anti-harassment/Policy), the [*Contributor Covenant version 1.2.0*](http://contributor-covenant.org/version/1/2/0/), the [*Bokeh Code of Conduct*](https://github.com/bokeh/bokeh/blob/main/docs/CODE_OF_CONDUCT.md), the [*SciPy Code of Conduct*](https://github.com/jupyter/governance/blob/main/conduct/enforcement.md), the [*Carpentries Code of Conduct*](https://docs.carpentries.org/topic_folders/policies/code-of-conduct.html#enforcement-manual), and the [*NeurIPS Code of Conduct*](https://neurips.cc/public/CodeOfConduct).
 
 **PyAutoFit Code of Conduct is licensed under the [Creative Commons Attribution 3.0 Unported License](https://creativecommons.org/licenses/by/3.0/).**

README.md

@@ -1,6 +1,6 @@
 # PyAutoFit Workspace
 
-[![Colab](https://colab.research.google.com/assets/colab-badge.svg)](https://colab.research.google.com/github/PyAutoLabs/autofit_workspace/blob/2026.5.14.2/start_here.ipynb)
+[![Colab](https://colab.research.google.com/assets/colab-badge.svg)](https://colab.research.google.com/github/PyAutoLabs/autofit_workspace/blob/2026.5.14.2/notebooks/overview/overview_1_the_basics.ipynb)
 [![JOSS](https://joss.theoj.org/papers/10.21105/joss.02550/status.svg)](https://doi.org/10.21105/joss.02550)
 
 [Installation Guide](https://pyautofit.readthedocs.io/en/latest/installation/overview.html) |
@@ -67,7 +67,7 @@ This version of the workspace are built and tested for using **PyAutoFit v2026.5
 ## Support
 
 Support for installation issues and integrating your modeling software with **PyAutoFit** is available by
-[raising an issue on the autofit_workspace GitHub page](https://github.com/Jammy2211/autofit_workspace/issues). or
+[raising an issue on the autofit_workspace GitHub page](https://github.com/PyAutoLabs/autofit_workspace/issues). or
 joining the **PyAutoFit** [Slack channel](https://pyautofit.slack.com/), where we also provide the latest updates on
 **PyAutoFit**.
 

notebooks/overview/overview_1_the_basics.ipynb

@@ -883,7 +883,7 @@
         "\n",
         "__Resources__\n",
         "\n",
-        "The `autofit_workspace: <https://github.com/Jammy2211/autofit_workspace/>`_ repository on GitHub provides numerous \n",
+        "The `autofit_workspace: <https://github.com/PyAutoLabs/autofit_workspace/>`_ repository on GitHub provides numerous \n",
         "examples demonstrating more complex model-fitting tasks.\n",
         "\n",
         "This includes cookbooks, which provide a concise reference guide to the **PyAutoFit** API for advanced model-fitting:\n",

notebooks/overview/overview_2_scientific_workflow.ipynb

@@ -265,7 +265,7 @@
       "source": [
         "The screenshot below shows the output folder where all output is enabled:\n",
         "\n",
-        ".. image:: https://raw.githubusercontent.com/Jammy2211/PyAutoFit/main/docs/overview/image/output_example.png\n",
+        ".. image:: https://raw.githubusercontent.com/PyAutoLabs/PyAutoFit/main/docs/overview/image/output_example.png\n",
         "  :width: 400\n",
         "  :alt: Alternative text\n",
         "\n",

notebooks/overview/overview_3_statistical_methods.ipynb

@@ -20,7 +20,7 @@
         "\n",
         "A full description of using graphical models is given below:\n",
         "\n",
-        "https://github.com/Jammy2211/autofit_workspace/blob/release/notebooks/features/graphical_models.ipynb\n",
+        "https://github.com/PyAutoLabs/autofit_workspace/blob/main/notebooks/features/graphical_models.ipynb\n",
         "\n",
         "Hierarchical Models\n",
         "-------------------\n",
@@ -44,7 +44,7 @@
         "\n",
         "A full description of using model comparison is given below:\n",
         "\n",
-        "https://github.com/Jammy2211/autofit_workspace/blob/release/notebooks/features/model_comparison.ipynb\n",
+        "https://github.com/PyAutoLabs/autofit_workspace/blob/main/notebooks/features/model_comparison.ipynb\n",
         "\n",
         "Interpolation\n",
         "-------------\n",
@@ -60,7 +60,7 @@
         "\n",
         "**PyAutoFit**'s interpolation feature allows for this, and a full description of its use is given below:\n",
         "\n",
-        "https://github.com/Jammy2211/autofit_workspace/blob/release/notebooks/features/interpolate.ipynb\n",
+        "https://github.com/PyAutoLabs/autofit_workspace/blob/main/notebooks/features/interpolate.ipynb\n",
         "\n",
         "Search Grid Search\n",
         "------------------\n",
@@ -80,7 +80,7 @@
         "\n",
         "A full description of using search grid searches is given below:\n",
         "\n",
-        "https://github.com/Jammy2211/autofit_workspace/blob/release/notebooks/features/search_grid_search.ipynb\n",
+        "https://github.com/PyAutoLabs/autofit_workspace/blob/main/notebooks/features/search_grid_search.ipynb\n",
         "\n",
         "Search Chaining\n",
         "---------------\n",
@@ -96,7 +96,7 @@
         "\n",
         "A full description of using search chaining is given below:\n",
         "\n",
-        "https://github.com/Jammy2211/autofit_workspace/blob/release/notebooks/features/search_grid_search.ipynb\n",
+        "https://github.com/PyAutoLabs/autofit_workspace/blob/main/notebooks/features/search_grid_search.ipynb\n",
         "\n",
         "Sensitivity Mapping\n",
         "-------------------\n",
@@ -114,7 +114,7 @@
         "\n",
         "A full description of using sensitivity mapping is given below:\n",
         "\n",
-        "https://github.com/Jammy2211/autofit_workspace/blob/release/notebooks/features/sensitivity_mapping.ipynb\n",
+        "https://github.com/PyAutoLabs/autofit_workspace/blob/main/notebooks/features/sensitivity_mapping.ipynb\n",
         "\n",
         "__Contents__\n",
         "\n",

notebooks/searches/mle.ipynb

@@ -15,7 +15,7 @@
         "\n",
         "Relevant links:\n",
         "\n",
-        " - Drawer: https://github.com/rhayes777/PyAutoFit/blob/main/autofit/non_linear/optimize/drawer/drawer.py\n",
+        " - Drawer: https://github.com/PyAutoLabs/PyAutoFit/blob/main/autofit/non_linear/optimize/drawer/drawer.py\n",
         " - L-BFGS: https://docs.scipy.org/doc/scipy/reference/optimize.minimize-lbfgsb.html\n",
         "\n",
         "__Contents__\n",

scripts/overview/overview_1_the_basics.py

@@ -583,7 +583,7 @@ def log_likelihood_function(self, instance) -> float:
 
 __Resources__
 
-The `autofit_workspace: <https://github.com/Jammy2211/autofit_workspace/>`_ repository on GitHub provides numerous 
+The `autofit_workspace: <https://github.com/PyAutoLabs/autofit_workspace/>`_ repository on GitHub provides numerous 
 examples demonstrating more complex model-fitting tasks.
 
 This includes cookbooks, which provide a concise reference guide to the **PyAutoFit** API for advanced model-fitting:

scripts/overview/overview_2_scientific_workflow.py

@@ -196,7 +196,7 @@ def on_the_fly_output(self, instance):
 """
 The screenshot below shows the output folder where all output is enabled:
 
-.. image:: https://raw.githubusercontent.com/Jammy2211/PyAutoFit/main/docs/overview/image/output_example.png
+.. image:: https://raw.githubusercontent.com/PyAutoLabs/PyAutoFit/main/docs/overview/image/output_example.png
   :width: 400
   :alt: Alternative text
 

scripts/overview/overview_3_statistical_methods.py

@@ -15,7 +15,7 @@
 
 A full description of using graphical models is given below:
 
-https://github.com/Jammy2211/autofit_workspace/blob/release/notebooks/features/graphical_models.ipynb
+https://github.com/PyAutoLabs/autofit_workspace/blob/main/notebooks/features/graphical_models.ipynb
 
 Hierarchical Models
 -------------------
@@ -39,7 +39,7 @@
 
 A full description of using model comparison is given below:
 
-https://github.com/Jammy2211/autofit_workspace/blob/release/notebooks/features/model_comparison.ipynb
+https://github.com/PyAutoLabs/autofit_workspace/blob/main/notebooks/features/model_comparison.ipynb
 
 Interpolation
 -------------
@@ -55,7 +55,7 @@
 
 **PyAutoFit**'s interpolation feature allows for this, and a full description of its use is given below:
 
-https://github.com/Jammy2211/autofit_workspace/blob/release/notebooks/features/interpolate.ipynb
+https://github.com/PyAutoLabs/autofit_workspace/blob/main/notebooks/features/interpolate.ipynb
 
 Search Grid Search
 ------------------
@@ -75,7 +75,7 @@
 
 A full description of using search grid searches is given below:
 
-https://github.com/Jammy2211/autofit_workspace/blob/release/notebooks/features/search_grid_search.ipynb
+https://github.com/PyAutoLabs/autofit_workspace/blob/main/notebooks/features/search_grid_search.ipynb
 
 Search Chaining
 ---------------
@@ -91,7 +91,7 @@
 
 A full description of using search chaining is given below:
 
-https://github.com/Jammy2211/autofit_workspace/blob/release/notebooks/features/search_grid_search.ipynb
+https://github.com/PyAutoLabs/autofit_workspace/blob/main/notebooks/features/search_grid_search.ipynb
 
 Sensitivity Mapping
 -------------------
@@ -109,7 +109,7 @@
 
 A full description of using sensitivity mapping is given below:
 
-https://github.com/Jammy2211/autofit_workspace/blob/release/notebooks/features/sensitivity_mapping.ipynb
+https://github.com/PyAutoLabs/autofit_workspace/blob/main/notebooks/features/sensitivity_mapping.ipynb
 
 __Contents__
 

scripts/searches/mle.py

@@ -10,7 +10,7 @@
 
 Relevant links:
 
- - Drawer: https://github.com/rhayes777/PyAutoFit/blob/main/autofit/non_linear/optimize/drawer/drawer.py
+ - Drawer: https://github.com/PyAutoLabs/PyAutoFit/blob/main/autofit/non_linear/optimize/drawer/drawer.py
  - L-BFGS: https://docs.scipy.org/doc/scipy/reference/optimize.minimize-lbfgsb.html
 
 __Contents__