Merge branch 'main' into feature/positions_threshold

Author: Jammy2211

.github/workflows/url_check.yml

@@ -4,9 +4,16 @@ on:
   push:
     branches: [main]
   pull_request:
+  schedule:
+    - cron: '0 4 * * 1'  # Mondays 04:00 UTC
+  workflow_dispatch:
+
+permissions:
+  contents: read
 
 jobs:
-  url_check:
+  url_check_patterns:
+    name: Offline regex guard
     runs-on: ubuntu-latest
     steps:
       - name: Checkout repo
@@ -21,3 +28,68 @@ jobs:
           path: PyAutoBuild
       - name: Run url_check.sh
         run: bash PyAutoBuild/autobuild/url_check.sh repo
+
+  url_check_live:
+    name: Live HTTP audit (weekly)
+    if: github.event_name == 'schedule' || github.event_name == 'workflow_dispatch'
+    runs-on: ubuntu-latest
+    permissions:
+      contents: read
+      issues: write
+    steps:
+      - name: Checkout repo
+        uses: actions/checkout@v4
+        with:
+          path: repo
+      - name: Checkout PyAutoBuild
+        uses: actions/checkout@v4
+        with:
+          repository: PyAutoLabs/PyAutoBuild
+          ref: main
+          path: PyAutoBuild
+      - name: Set up Python
+        uses: actions/setup-python@v5
+        with:
+          python-version: '3.12'
+      - name: Install requests
+        run: pip install --quiet requests
+      - name: Run live URL audit
+        id: audit
+        run: |
+          set +e
+          body=$(bash PyAutoBuild/autobuild/url_check_live.sh repo)
+          rc=$?
+          printf '%s\n' "$body" > /tmp/url_audit_body.md
+          echo "rc=$rc" >> "$GITHUB_OUTPUT"
+          cat /tmp/url_audit_body.md
+          exit 0
+      - name: Open or update [url-check] tracking issue
+        if: steps.audit.outputs.rc != '0'
+        env:
+          GH_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+        run: |
+          cd repo
+          existing=$(gh issue list --search '"[url-check]"' --state open --json number --jq '.[0].number // empty')
+          if [ -n "$existing" ]; then
+            echo "Updating existing tracking issue #$existing"
+            gh issue comment "$existing" --body-file /tmp/url_audit_body.md
+          else
+            echo "Opening new tracking issue"
+            gh issue create \
+              --title "[url-check] New broken URLs detected" \
+              --body-file /tmp/url_audit_body.md \
+              --label url-check 2>/dev/null \
+              || gh issue create \
+                --title "[url-check] New broken URLs detected" \
+                --body-file /tmp/url_audit_body.md
+          fi
+      - name: Close stale tracking issue if audit is clean
+        if: steps.audit.outputs.rc == '0'
+        env:
+          GH_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+        run: |
+          cd repo
+          for n in $(gh issue list --search '"[url-check]"' --state open --json number --jq '.[].number'); do
+            echo "Closing now-clean tracking issue #$n"
+            gh issue close "$n" --comment "Weekly URL audit is clean — closing automatically."
+          done

.url_check_allowlist.txt

@@ -0,0 +1,43 @@
+# Known broken URLs grandfathered for url_check_live.sh.
+# Format: one URL per line. Lines starting with '#' and blank lines are ignored.
+# Sample location follows each URL as a trailing comment.
+#
+# This file is referenced by .github/workflows/url_check.yml (weekly cron).
+# url_check_live.sh fails CI when a URL is broken AND not in this file.
+# To accept new breakage: append the URL here. To force a fix: leave it out.
+
+# Academic citations (paywall / DOI / journal)
+https://academic.oup.com/mnras/article-abstract/478/4/4738/5001434?redirectedFrom=fulltext  # CITATIONS.md:11
+https://academic.oup.com/mnras/article-abstract/489/2/2049/5550746  # docs/index.md:35
+https://academic.oup.com/mnras/article/442/3/2017/1048278  # docs/index.md:36
+https://academic.oup.com/mnras/article/452/3/2940/1749640  # CITATIONS.md:11
+https://academic.oup.com/mnras/article/468/3/2590/3055701  # docs/index.md:37
+https://academic.oup.com/mnras/article/488/1/1387/5526256  # CITATIONS.md:22
+
+# Code of Conduct boilerplate
+http://geekfeminism.wikia.com/wiki/Conference_anti-harassment/Policy  # CODE_OF_CONDUCT.md:305
+
+# Colab refs to notebooks no longer in HowTo/workspace
+https://colab.research.google.com/github/PyAutoLabs/HowToLens/blob/2026.5.14.2/notebooks/chapter_3_search_chaining/tutorial_4_complex_source.ipynb  # docs/howtolens/chapter_3_search_chaining.md:20
+https://colab.research.google.com/github/PyAutoLabs/HowToLens/blob/2026.5.14.2/notebooks/chapter_4_pixelizations/tutorial_11_adapt_regularization.py.ipynb  # docs/howtolens/chapter_4_pixelizations.md:37
+https://colab.research.google.com/github/PyAutoLabs/HowToLens/blob/2026.5.14.2/notebooks/chapter_optional/tutorial_sub_grids.ipynb  # docs/howtolens/chapter_optional.md:7
+
+# External dead / paywalled / departmental pages
+http://www.ita.uni-heidelberg.de/~massimo/sub/Lectures/gl_all.pdf  # docs/howtolens/howtolens.md:36
+https://bitbucket.org/bdiemer/colossus/src/main/  # files/citations.md:12
+
+# GitHub refs (workspaces / removed tutorials)
+https://github.com/PyAutoLabs/autolens_workspace/blob/main/notebooks/imaging/advanced/chaining/start_here.ipynb  # docs/general/model_cookbook.md:384
+https://github.com/PyAutoLabs/autolens_workspace/blob/main/scripts/imaging/preprocess/gui/positions.py  # docs/general/demagnified_solutions.md:73
+
+# Internal PyAuto docs — pages renamed, need editorial fix
+https://pyautolens.readthedocs.io/en/latest/advanced/slam.html  # docs/general/workspace.md:49
+https://pyautolens.readthedocs.io/en/latest/general/installation.html#installation-with-pip  # docs/general/workspace.md:7
+https://pyautolens.readthedocs.io/en/latest/installation/numba.html  # docs/installation/pip.md:86
+
+# Internal image refs missing from main
+https://raw.githubusercontent.com/PyAutoLabs/PyAutoLens/main/docs/general/images/data.png  # docs/general/demagnified_solutions.md:13
+https://raw.githubusercontent.com/PyAutoLabs/PyAutoLens/main/docs/general/images/lensed_source.png  # docs/general/demagnified_solutions.md:67
+https://raw.githubusercontent.com/PyAutoLabs/PyAutoLens/main/docs/general/images/model_image.png  # docs/general/demagnified_solutions.md:18
+https://raw.githubusercontent.com/PyAutoLabs/PyAutoLens/main/docs/overview/images/overview_3/g_image.png  # docs/overview/overview_3_features.md:150
+https://raw.githubusercontent.com/PyAutoLabs/PyAutoLens/main/docs/overview/images/overview_3/r_image.png  # docs/overview/overview_3_features.md:155

CITATIONS.md

@@ -1,9 +1,9 @@
 # Citations & References
 
 The bibtex entries for **PyAutoLens** and its affiliated software packages can be found
-[here](https://github.com/Jammy2211/PyAutoLens/blob/main/files/citations.bib), with example text for citing **PyAutoLens**
-in [.tex format here](https://github.com/Jammy2211/PyAutoLens/blob/main/files/citations.tex) format here and
-[.md format here](https://github.com/Jammy2211/PyAutoLens/blob/main/files/citations.md). As shown in the examples, we
+[here](https://github.com/PyAutoLabs/PyAutoLens/blob/main/files/citations.bib), with example text for citing **PyAutoLens**
+in [.tex format here](https://github.com/PyAutoLabs/PyAutoLens/blob/main/files/citations.tex) format here and
+[.md format here](https://github.com/PyAutoLabs/PyAutoLens/blob/main/files/citations.md). As shown in the examples, we
 would greatly appreciate it if you mention **PyAutoLens** by name and include a link to our GitHub page!
 
 **PyAutoLens** is published in the [Journal of Open Source Software](https://joss.theoj.org/papers/10.21105/joss.02825#) and its

CLAUDE.md

@@ -82,7 +82,6 @@ autolens/
   imaging/         FitImaging, AnalysisImaging
   interferometer/  FitInterferometer, AnalysisInterferometer
   point/           Point-source datasets, fits, and analysis
-  quantity/        FitQuantity for arbitrary lensing quantities
   analysis/        Shared analysis base classes, adapt images
   aggregator/      Scraping results from autofit output directories
   plot/            Visualisation for all data types
@@ -156,26 +155,26 @@ When importing `autolens as al`:
 ## Line Endings — Always Unix (LF)
 
 All files **must use Unix line endings (LF, `\n`)**. Never write `\r\n` line endings.
-## Never rewrite history
-
-NEVER perform these operations on any repo with a remote:
-
-- `git init` in a directory already tracked by git
-- `rm -rf .git && git init`
-- Commit with subject "Initial commit", "Fresh start", "Start fresh", "Reset
-  for AI workflow", or any equivalent message on a branch with a remote
-- `git push --force` to `main` (or any branch tracked as `origin/HEAD`)
-- `git filter-repo` / `git filter-branch` on shared branches
-- `git rebase -i` rewriting commits already pushed to a shared branch
-
-If the working tree needs a clean state, the **only** correct sequence is:
-
-    git fetch origin
-    git reset --hard origin/main
-    git clean -fd
-
-This applies equally to humans, local Claude Code, cloud Claude agents, Codex,
-and any other agent. The "Initial commit — fresh start for AI workflow" pattern
-that appeared independently on origin and local for three workspace repos is
-exactly what this rule prevents — it costs ~40 commits of redundant local work
-every time it happens.
+## Never rewrite history
+
+NEVER perform these operations on any repo with a remote:
+
+- `git init` in a directory already tracked by git
+- `rm -rf .git && git init`
+- Commit with subject "Initial commit", "Fresh start", "Start fresh", "Reset
+  for AI workflow", or any equivalent message on a branch with a remote
+- `git push --force` to `main` (or any branch tracked as `origin/HEAD`)
+- `git filter-repo` / `git filter-branch` on shared branches
+- `git rebase -i` rewriting commits already pushed to a shared branch
+
+If the working tree needs a clean state, the **only** correct sequence is:
+
+    git fetch origin
+    git reset --hard origin/main
+    git clean -fd
+
+This applies equally to humans, local Claude Code, cloud Claude agents, Codex,
+and any other agent. The "Initial commit — fresh start for AI workflow" pattern
+that appeared independently on origin and local for three workspace repos is
+exactly what this rule prevents — it costs ~40 commits of redundant local work
+every time it happens.

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).
 
 **PyAutoLens Code of Conduct is licensed under the [Creative Commons Attribution 3.0 Unported License](https://creativecommons.org/licenses/by/3.0/).**

CONTRIBUTING.md

@@ -74,7 +74,7 @@ Contributions are welcome and greatly appreciated!
 
 ### Report Bugs
 
-Report bugs at https://github.com/Jammy2211/PyAutoLens/issues
+Report bugs at https://github.com/PyAutoLabs/PyAutoLens/issues
 
 If you are playing with the PyAutoLens library and find a bug, please
 reporting it including:
@@ -86,7 +86,7 @@ reporting it including:
 ### Propose New Features
 
 The best way to send feedback is to open an issue at
-https://github.com/Jammy2211/PyAutoLens
+https://github.com/PyAutoLabs/PyAutoLens
 with tag *enhancement*.
 
 If you are proposing a nnew feature:

README.md

@@ -1,8 +1,8 @@
 # PyAutoLens-JAX: Open-Source Strong Lensing
 
-[![Colab](https://colab.research.google.com/assets/colab-badge.svg)](https://colab.research.google.com/github/PyAutoLabs/autolens_workspace/blob/2026.5.8.2/start_here.ipynb)
+[![Colab](https://colab.research.google.com/assets/colab-badge.svg)](https://colab.research.google.com/github/PyAutoLabs/autolens_workspace/blob/2026.5.29.4/notebooks/imaging/start_here.ipynb)
 [![Documentation Status](https://readthedocs.org/projects/pyautolens/badge/?version=latest)](https://pyautolens.readthedocs.io/en/latest/?badge=latest)
-[![Tests](https://github.com/Jammy2211/PyAutoLens/actions/workflows/main.yml/badge.svg)](https://github.com/Jammy2211/PyAutoLens/actions)
+[![Tests](https://github.com/PyAutoLabs/PyAutoLens/actions/workflows/main.yml/badge.svg)](https://github.com/PyAutoLabs/PyAutoLens/actions)
 [![Build](https://github.com/Jammy2211/PyAutoBuild/actions/workflows/release.yml/badge.svg)](https://github.com/Jammy2211/PyAutoBuild/actions)
 [![Code Style: black](https://img.shields.io/badge/code%20style-black-000000.svg)](https://github.com/psf/black)
 [![JOSS](https://joss.theoj.org/papers/10.21105/joss.02825/status.svg)](https://doi.org/10.21105/joss.02825)
@@ -14,7 +14,7 @@
 
 [Installation Guide](https://pyautolens.readthedocs.io/en/latest/installation/overview.html) |
 [readthedocs](https://pyautolens.readthedocs.io/en/latest/index.html) |
-[Introduction on Colab](https://colab.research.google.com/github/PyAutoLabs/autolens_workspace/blob/2026.5.8.2/start_here.ipynb) |
+[Introduction on Colab](https://colab.research.google.com/github/PyAutoLabs/autolens_workspace/blob/2026.5.29.4/notebooks/imaging/start_here.ipynb) |
 [HowToLens](https://pyautolens.readthedocs.io/en/latest/howtolens/howtolens.html)
 
 <img src="https://github.com/Jammy2211/PyAutoLogo/blob/main/gifs/pyautolens.gif?raw=true" width="900" />
@@ -23,12 +23,14 @@ When two or more galaxies are aligned perfectly down our line-of-sight, the back
 
 This is called strong gravitational lensing and **PyAutoLens** makes it **simple** to model strong gravitational lenses, using JAX to **accelerate lens modeling on GPUs**.
 
+> 🤖 **Prototype:** [**autolens_assistant**](https://github.com/PyAutoLabs/autolens_assistant) is an early-stage AI assistant you talk to in natural language to do lens modeling end-to-end. It is experimental and **not the recommended starting point** — the readthedocs, autolens_workspace, and HowToLens below remain the canonical entry points. Try it if you'd like to drive PyAutoLens by conversation.
+
 ## Getting Started
 
 The following links are useful for new starters:
 
 - [The PyAutoLens readthedocs](https://pyautolens.readthedocs.io/en/latest): which includes [an overview of PyAutoLens's core features](https://pyautolens.readthedocs.io/en/latest/overview/overview_1_start_here.html), [a new user starting guide](https://pyautolens.readthedocs.io/en/latest/overview/overview_2_new_user_guide.html) and [an installation guide](https://pyautolens.readthedocs.io/en/latest/installation/overview.html).
-- [The introduction Jupyter Notebook on Google Colab](https://colab.research.google.com/github/PyAutoLabs/autolens_workspace/blob/2026.5.8.2/start_here.ipynb): try **PyAutoLens** in a web browser (without installation).
+- [The introduction Jupyter Notebook on Google Colab](https://colab.research.google.com/github/PyAutoLabs/autolens_workspace/blob/2026.5.29.4/notebooks/imaging/start_here.ipynb): try **PyAutoLens** in a web browser (without installation).
 - [The autolens_workspace GitHub repository](https://github.com/PyAutoLabs/autolens_workspace): example scripts covering every **PyAutoLens** use case.
 - [The HowToLens GitHub repository](https://github.com/PyAutoLabs/HowToLens): a Jupyter notebook lecture series teaching strong lensing and lens modeling from the ground up.
 
@@ -39,7 +41,7 @@ gravitational lensing analysis, and helps troubleshoot problems.
 
 Slack is invitation-only. If you'd like to join, please send an email requesting an invite.
 
-For installation issues, bug reports, or feature requests, please raise an issue on the [GitHub issues page](https://github.com/Jammy2211/PyAutoLens/issues).
+For installation issues, bug reports, or feature requests, please raise an issue on the [GitHub issues page](https://github.com/PyAutoLabs/PyAutoLens/issues).
 
 ## HowToLens
 
@@ -51,10 +53,10 @@ A complete overview of the lectures [is provided on the HowToLens readthedocs pa
 
 ## Citations
 
-Information on how to cite **PyAutoLens** in publications can be found [on the citations page](https://github.com/Jammy2211/PyAutoLens/blob/main/CITATIONS.md).
+Information on how to cite **PyAutoLens** in publications can be found [on the citations page](https://github.com/PyAutoLabs/PyAutoLens/blob/main/CITATIONS.md).
 
 ## Contributing
 
-Information on how to contribute to **PyAutoLens** can be found [on the contributing page](https://github.com/Jammy2211/PyAutoLens/blob/main/CONTRIBUTING.md).
+Information on how to contribute to **PyAutoLens** can be found [on the contributing page](https://github.com/PyAutoLabs/PyAutoLens/blob/main/CONTRIBUTING.md).
 
 Hands on support for contributions is available via our Slack workspace, again please email to request an invite.

autolens/__init__.py

@@ -63,9 +63,14 @@
 from autogalaxy.galaxy.galaxy_table import GalaxyTable
 from autogalaxy.galaxy.galaxy_table import galaxy_table_from_csv
 from autogalaxy.galaxy.galaxy_table import galaxy_table_to_csv
+from autogalaxy.galaxy.galaxy_model_csv import GalaxyModelRow
+from autogalaxy.galaxy.galaxy_model_csv import GalaxyModelTable
+from autogalaxy.galaxy.galaxy_model_csv import galaxy_models_from_csv
+from autogalaxy.galaxy.galaxy_model_csv import galaxy_models_to_csv
+from autogalaxy.galaxy.galaxy_model_csv import galaxies_from_csv_tables
+from autogalaxy.galaxy.galaxy_model_csv import galaxy_af_models_from_csv_tables
 from autogalaxy.galaxy.redshift import Redshift
 
-from autogalaxy.quantity.dataset_quantity import DatasetQuantity
 from autogalaxy.profiles.geometry_profiles import EllProfile
 from autogalaxy.profiles import (
     point_sources as ps,
@@ -86,7 +91,6 @@
 from autogalaxy.profiles.light.linear import LightProfileLinearObjFuncList
 from autogalaxy.operate.image import OperateImage
 from autogalaxy.operate.lens_calc import LensCalc
-from autogalaxy.quantity.dataset_quantity import DatasetQuantity
 from autogalaxy import convert
 
 from . import aggregator as agg
@@ -119,9 +123,8 @@
 from .point.model.analysis import AnalysisPoint
 from .point.solver import PointSolver
 from .point.solver.shape_solver import ShapeSolver
-from .quantity.fit_quantity import FitQuantity
-from .quantity.model.analysis import AnalysisQuantity
 from .weak.dataset import WeakDataset
+from .weak.fit import FitWeak
 from .weak.simulator import SimulatorShearYX
 
 from . import exc
@@ -137,7 +140,7 @@
 
 conf.instance.register(__file__)
 
-__version__ = "2026.5.8.2"
+__version__ = "2026.5.29.4"
 
 from autoconf import check_version
 

autolens/analysis/analysis/lens.py

@@ -2,8 +2,8 @@
 Lensing-specific mixin for all **PyAutoLens** ``Analysis`` classes.
 
 ``AnalysisLens`` is a mixin that adds lensing-specific behaviour to any analysis class.
-It is inherited (alongside dataset-specific base classes) by ``AnalysisDataset``,
-``AnalysisPoint``, and ``AnalysisQuantity``.
+It is inherited (alongside dataset-specific base classes) by ``AnalysisDataset``
+and ``AnalysisPoint``.
 
 Key responsibilities: