From e09353503455aba93434f4a02a6d739d7090fb04 Mon Sep 17 00:00:00 2001
From: "dependabot[bot]" <49699333+dependabot[bot]@users.noreply.github.com>
Date: Fri, 6 Feb 2026 14:50:07 +0000
Subject: [PATCH 1/8] MAINT: bump pydot from 1.4.2 to 4.0.1 in the lock group

Bumps the lock group with 1 update: [pydot](https://github.com/pydot/pydot).


Updates `pydot` from 1.4.2 to 4.0.1
- [Changelog](https://github.com/pydot/pydot/blob/main/ChangeLog)
- [Commits](https://github.com/pydot/pydot/compare/v1.4.2...v4.0.1)

---
updated-dependencies:
- dependency-name: pydot
  dependency-version: 4.0.1
  dependency-type: direct:development
  update-type: version-update:semver-major
  dependency-group: lock
...

Signed-off-by: dependabot[bot] <support@github.com>
---
 pyproject.toml |  4 ++--
 uv.lock        | 20 +++++++++++++-------
 2 files changed, 15 insertions(+), 9 deletions(-)

diff --git a/pyproject.toml b/pyproject.toml
index f4403feb..7a8999fa 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -106,14 +106,14 @@ style = [
 ]
 test = [
     "ipython",
-    "pydot <2",
+    "pydot<5",
     "pytest",
     "pytest-cov",
     "pytest-xdist",
 ]
 types = [
     "ipython",
-    "pydot <2",
+    "pydot<5",
     "pytest",
     "sphinx-api-relink",
     "types-PyYAML",
diff --git a/uv.lock b/uv.lock
index f87a6379..67e5e134 100644
--- a/uv.lock
+++ b/uv.lock
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 [[package]]
@@ -2533,7 +2539,7 @@ dev = [
     { name = "jupyterlab-quickopen" },
     { name = "mypy" },
     { name = "myst-nb" },
-    { name = "pydot", specifier = "<2" },
+    { name = "pydot", specifier = "<5" },
     { name = "pytest" },
     { name = "pytest-cov" },
     { name = "pytest-xdist" },
@@ -2587,21 +2593,21 @@ notebooks = [{ name = "qrules", extras = ["viz"] }]
 style = [
     { name = "ipython" },
     { name = "mypy" },
-    { name = "pydot", specifier = "<2" },
+    { name = "pydot", specifier = "<5" },
     { name = "pytest" },
     { name = "sphinx-api-relink" },
     { name = "types-pyyaml" },
 ]
 test = [
     { name = "ipython" },
-    { name = "pydot", specifier = "<2" },
+    { name = "pydot", specifier = "<5" },
     { name = "pytest" },
     { name = "pytest-cov" },
     { name = "pytest-xdist" },
 ]
 types = [
     { name = "ipython" },
-    { name = "pydot", specifier = "<2" },
+    { name = "pydot", specifier = "<5" },
     { name = "pytest" },
     { name = "sphinx-api-relink" },
     { name = "types-pyyaml" },

From 282b3f85e67a4bd40428cb2ce7ccd81ebd90134c Mon Sep 17 00:00:00 2001
From: Remco de Boer <29308176+redeboer@users.noreply.github.com>
Date: Fri, 6 Feb 2026 15:53:43 +0100
Subject: [PATCH 2/8] MAINT: upgrade `pydot` in lock file

---
 pyproject.toml |  4 ++--
 uv.lock        | 14 ++++----------
 2 files changed, 6 insertions(+), 12 deletions(-)

diff --git a/pyproject.toml b/pyproject.toml
index 7a8999fa..d1dbd598 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -106,14 +106,14 @@ style = [
 ]
 test = [
     "ipython",
-    "pydot<5",
+    "pydot",
     "pytest",
     "pytest-cov",
     "pytest-xdist",
 ]
 types = [
     "ipython",
-    "pydot<5",
+    "pydot",
     "pytest",
     "sphinx-api-relink",
     "types-PyYAML",
diff --git a/uv.lock b/uv.lock
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     { url = "https://files.pythonhosted.org/packages/89/90/a3be7a5f378fc6e84abe4dcfb2ba32b07786861172e502388b4c90000d1b/greenlet-3.3.1-cp314-cp314t-musllinux_1_2_x86_64.whl", hash = "sha256:59913f1e5ada20fde795ba906916aea25d442abcc0593fba7e26c92b7ad76249", size = 1676092, upload-time = "2026-01-23T15:33:52.176Z" },
@@ -2539,7 +2533,7 @@ dev = [
     { name = "jupyterlab-quickopen" },
     { name = "mypy" },
     { name = "myst-nb" },
-    { name = "pydot", specifier = "<5" },
+    { name = "pydot" },
     { name = "pytest" },
     { name = "pytest-cov" },
     { name = "pytest-xdist" },
@@ -2593,21 +2587,21 @@ notebooks = [{ name = "qrules", extras = ["viz"] }]
 style = [
     { name = "ipython" },
     { name = "mypy" },
-    { name = "pydot", specifier = "<5" },
+    { name = "pydot" },
     { name = "pytest" },
     { name = "sphinx-api-relink" },
     { name = "types-pyyaml" },
 ]
 test = [
     { name = "ipython" },
-    { name = "pydot", specifier = "<5" },
+    { name = "pydot" },
     { name = "pytest" },
     { name = "pytest-cov" },
     { name = "pytest-xdist" },
 ]
 types = [
     { name = "ipython" },
-    { name = "pydot", specifier = "<5" },
+    { name = "pydot" },
     { name = "pytest" },
     { name = "sphinx-api-relink" },
     { name = "types-pyyaml" },

From b6c1eb055e909ccbd10e82021a8caed8b3e8530a Mon Sep 17 00:00:00 2001
From: "pre-commit-ci[bot]"
 <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Date: Tue, 17 Feb 2026 10:57:42 +0100
Subject: [PATCH 3/8] MAINT: upgrade lock files (#329)
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

* MAINT: upgrade lock files

updates:
- [github.com/ComPWA/policy: 0.8.2 → 0.8.3](https://github.com/ComPWA/policy/compare/0.8.2...0.8.3)
- [github.com/astral-sh/ruff-pre-commit: v0.15.0 → v0.15.1](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.0...v0.15.1)
- [github.com/python-jsonschema/check-jsonschema: 0.36.1 → 0.36.2](https://github.com/python-jsonschema/check-jsonschema/compare/0.36.1...0.36.2)
- [github.com/astral-sh/uv-pre-commit: 0.10.0 → 0.10.3](https://github.com/astral-sh/uv-pre-commit/compare/0.10.0...0.10.3)

* MAINT: address Ruff issues

* MAINT: upgrade lock files

* DX: remove `%pip install` cells and apply Prettier formatting

* MAINT: sort alphabetically

---------

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Co-authored-by: Remco de Boer <29308176+redeboer@users.noreply.github.com>
---
 .pre-commit-config.yaml          |  14 +-
 docs/usage.ipynb                 |  61 +----
 docs/usage/conservation.ipynb    |  52 +---
 docs/usage/custom-topology.ipynb |  52 +---
 docs/usage/ls-coupling.ipynb     |  52 +---
 docs/usage/particle.ipynb        |  56 +---
 docs/usage/reaction.ipynb        |  60 +---
 docs/usage/visualize.ipynb       |  60 +---
 pyproject.toml                   |   1 +
 src/qrules/_attrs.py             |   2 +-
 src/qrules/combinatorics.py      |   2 +-
 src/qrules/conservation_rules.py |   6 +-
 uv.lock                          | 451 ++++++++++++++++---------------
 13 files changed, 281 insertions(+), 588 deletions(-)

diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index bf247839..a80d4478 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -1,6 +1,7 @@
 ci:
   autofix_commit_msg: "MAINT: implement pre-commit autofixes"
   autoupdate_commit_msg: "MAINT: upgrade lock files"
+  autoupdate_schedule: quarterly
   skip:
     - check-jsonschema
     - mypy
@@ -14,7 +15,7 @@ repos:
       - id: check-useless-excludes
 
   - repo: https://github.com/ComPWA/policy
-    rev: 0.8.2
+    rev: 0.8.4
     hooks:
       - id: check-dev-files
         args:
@@ -27,10 +28,7 @@ repos:
       - id: fix-nbformat-version
       - id: remove-empty-tags
       - id: set-nb-cells
-        args:
-          - --add-install-cell
-          - --additional-packages=IPython
-          - --extras-require=doc,viz
+        args: [--autolink-concat]
       - id: set-nb-display-name
       - id: strip-nb-whitespace
 
@@ -63,7 +61,7 @@ repos:
             metadata.vscode
 
   - repo: https://github.com/astral-sh/ruff-pre-commit
-    rev: v0.15.0
+    rev: v0.15.1
     hooks:
       - id: ruff-check
         args: [--fix]
@@ -112,7 +110,7 @@ repos:
           - --in-place
 
   - repo: https://github.com/python-jsonschema/check-jsonschema
-    rev: 0.36.1
+    rev: 0.36.2
     hooks:
       - id: check-jsonschema
         name: Check CITATION.cff
@@ -155,6 +153,6 @@ repos:
       - id: pyright
 
   - repo: https://github.com/astral-sh/uv-pre-commit
-    rev: 0.10.0
+    rev: 0.10.3
     hooks:
       - id: uv-lock
diff --git a/docs/usage.ipynb b/docs/usage.ipynb
index 0fff53b0..fcec2b12 100644
--- a/docs/usage.ipynb
+++ b/docs/usage.ipynb
@@ -1,55 +1,5 @@
 {
  "cells": [
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {
-    "hideCode": true,
-    "hideOutput": true,
-    "hidePrompt": true,
-    "jupyter": {
-     "source_hidden": true
-    },
-    "tags": [
-     "remove-cell",
-     "skip-execution"
-    ]
-   },
-   "outputs": [],
-   "source": [
-    "# WARNING: advised to install a specific version, e.g. qrules==0.1.2\n",
-    "%pip install -q qrules[doc,viz] IPython"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {
-    "hideCode": true,
-    "hideOutput": true,
-    "hidePrompt": true,
-    "jupyter": {
-     "source_hidden": true
-    },
-    "tags": [
-     "remove-cell"
-    ]
-   },
-   "outputs": [],
-   "source": [
-    "import os\n",
-    "\n",
-    "STATIC_WEB_PAGE = {\"EXECUTE_NB\", \"READTHEDOCS\"}.intersection(os.environ)"
-   ]
-  },
-  {
-   "cell_type": "markdown",
-   "metadata": {},
-   "source": [
-    "```{autolink-concat}\n",
-    "```"
-   ]
-  },
   {
    "cell_type": "markdown",
    "metadata": {},
@@ -61,7 +11,12 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
+    "```{autolink-concat}\n",
+    "\n",
+    "```\n",
+    "\n",
     "```{thebe-button}\n",
+    "\n",
     "```"
    ]
   },
@@ -143,7 +98,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "The {func}`.load_pdg` function creates a {class}`.ParticleCollection` containing the latest PDG info. Its  {meth}`~.ParticleCollection.find` and  {meth}`~.ParticleCollection.filter` methods allows you to quickly look up the quantum numbers of a particle and, vice versa, look up particle candidates based on a set of quantum numbers."
+    "The {func}`.load_pdg` function creates a {class}`.ParticleCollection` containing the latest PDG info. Its {meth}`~.ParticleCollection.find` and {meth}`~.ParticleCollection.filter` methods allows you to quickly look up the quantum numbers of a particle and, vice versa, look up particle candidates based on a set of quantum numbers."
    ]
   },
   {
@@ -172,9 +127,9 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "````{margin}\n",
+    "```{margin}\n",
     "{meth}`~.ParticleCollection.filter` can perform any type of search using a [`lambda`](https://docs.python.org/3/tutorial/controlflow.html#lambda-expressions). Have a look at {class}`.Particle` for the available properties.\n",
-    "````"
+    "```"
    ]
   },
   {
diff --git a/docs/usage/conservation.ipynb b/docs/usage/conservation.ipynb
index 9b325dbe..0c676e5f 100644
--- a/docs/usage/conservation.ipynb
+++ b/docs/usage/conservation.ipynb
@@ -1,62 +1,16 @@
 {
  "cells": [
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {
-    "hideCode": true,
-    "hideOutput": true,
-    "hidePrompt": true,
-    "jupyter": {
-     "source_hidden": true
-    },
-    "tags": [
-     "remove-cell",
-     "skip-execution"
-    ]
-   },
-   "outputs": [],
-   "source": [
-    "# WARNING: advised to install a specific version, e.g. qrules==0.1.2\n",
-    "%pip install -q qrules[doc,viz] IPython"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {
-    "hideCode": true,
-    "hideOutput": true,
-    "hidePrompt": true,
-    "jupyter": {
-     "source_hidden": true
-    },
-    "tags": [
-     "remove-cell"
-    ]
-   },
-   "outputs": [],
-   "source": [
-    "import os\n",
-    "\n",
-    "STATIC_WEB_PAGE = {\"EXECUTE_NB\", \"READTHEDOCS\"}.intersection(os.environ)"
-   ]
-  },
   {
    "cell_type": "markdown",
    "metadata": {},
    "source": [
+    "# Conservation rules\n",
+    "\n",
     "```{autolink-concat}\n",
+    "\n",
     "```"
    ]
   },
-  {
-   "cell_type": "markdown",
-   "metadata": {},
-   "source": [
-    "# Conservation rules"
-   ]
-  },
   {
    "cell_type": "code",
    "execution_count": null,
diff --git a/docs/usage/custom-topology.ipynb b/docs/usage/custom-topology.ipynb
index 9934de12..f2565e66 100644
--- a/docs/usage/custom-topology.ipynb
+++ b/docs/usage/custom-topology.ipynb
@@ -1,62 +1,16 @@
 {
  "cells": [
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {
-    "hideCode": true,
-    "hideOutput": true,
-    "hidePrompt": true,
-    "jupyter": {
-     "source_hidden": true
-    },
-    "tags": [
-     "remove-cell",
-     "skip-execution"
-    ]
-   },
-   "outputs": [],
-   "source": [
-    "# WARNING: advised to install a specific version, e.g. qrules==0.1.2\n",
-    "%pip install -q qrules[doc,viz] IPython"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {
-    "hideCode": true,
-    "hideOutput": true,
-    "hidePrompt": true,
-    "jupyter": {
-     "source_hidden": true
-    },
-    "tags": [
-     "remove-cell"
-    ]
-   },
-   "outputs": [],
-   "source": [
-    "import os\n",
-    "\n",
-    "STATIC_WEB_PAGE = {\"EXECUTE_NB\", \"READTHEDOCS\"}.intersection(os.environ)"
-   ]
-  },
   {
    "cell_type": "markdown",
    "metadata": {},
    "source": [
+    "# Custom topologies\n",
+    "\n",
     "```{autolink-concat}\n",
+    "\n",
     "```"
    ]
   },
-  {
-   "cell_type": "markdown",
-   "metadata": {},
-   "source": [
-    "# Custom topologies"
-   ]
-  },
   {
    "cell_type": "markdown",
    "metadata": {},
diff --git a/docs/usage/ls-coupling.ipynb b/docs/usage/ls-coupling.ipynb
index 32eea23e..0db72c47 100644
--- a/docs/usage/ls-coupling.ipynb
+++ b/docs/usage/ls-coupling.ipynb
@@ -1,62 +1,16 @@
 {
  "cells": [
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {
-    "hideCode": true,
-    "hideOutput": true,
-    "hidePrompt": true,
-    "jupyter": {
-     "source_hidden": true
-    },
-    "tags": [
-     "remove-cell",
-     "skip-execution"
-    ]
-   },
-   "outputs": [],
-   "source": [
-    "# WARNING: advised to install a specific version, e.g. qrules==0.1.2\n",
-    "%pip install -q qrules[doc,viz] IPython"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {
-    "hideCode": true,
-    "hideOutput": true,
-    "hidePrompt": true,
-    "jupyter": {
-     "source_hidden": true
-    },
-    "tags": [
-     "remove-cell"
-    ]
-   },
-   "outputs": [],
-   "source": [
-    "import os\n",
-    "\n",
-    "STATIC_WEB_PAGE = {\"EXECUTE_NB\", \"READTHEDOCS\"}.intersection(os.environ)"
-   ]
-  },
   {
    "cell_type": "markdown",
    "metadata": {},
    "source": [
+    "# LS-couplings\n",
+    "\n",
     "```{autolink-concat}\n",
+    "\n",
     "```"
    ]
   },
-  {
-   "cell_type": "markdown",
-   "metadata": {},
-   "source": [
-    "# LS-couplings"
-   ]
-  },
   {
    "cell_type": "markdown",
    "metadata": {},
diff --git a/docs/usage/particle.ipynb b/docs/usage/particle.ipynb
index bd8637b5..0540fa0c 100644
--- a/docs/usage/particle.ipynb
+++ b/docs/usage/particle.ipynb
@@ -1,62 +1,16 @@
 {
  "cells": [
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {
-    "hideCode": true,
-    "hideOutput": true,
-    "hidePrompt": true,
-    "jupyter": {
-     "source_hidden": true
-    },
-    "tags": [
-     "remove-cell",
-     "skip-execution"
-    ]
-   },
-   "outputs": [],
-   "source": [
-    "# WARNING: advised to install a specific version, e.g. qrules==0.1.2\n",
-    "%pip install -q qrules[doc,viz] IPython"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {
-    "hideCode": true,
-    "hideOutput": true,
-    "hidePrompt": true,
-    "jupyter": {
-     "source_hidden": true
-    },
-    "tags": [
-     "remove-cell"
-    ]
-   },
-   "outputs": [],
-   "source": [
-    "import os\n",
-    "\n",
-    "STATIC_WEB_PAGE = {\"EXECUTE_NB\", \"READTHEDOCS\"}.intersection(os.environ)"
-   ]
-  },
   {
    "cell_type": "markdown",
    "metadata": {},
    "source": [
+    "# Particle database\n",
+    "\n",
     "```{autolink-concat}\n",
+    "\n",
     "```"
    ]
   },
-  {
-   "cell_type": "markdown",
-   "metadata": {},
-   "source": [
-    "# Particle database"
-   ]
-  },
   {
    "cell_type": "markdown",
    "metadata": {},
@@ -239,8 +193,8 @@
    "metadata": {},
    "source": [
     "```{margin} Duplicate names or PIDs\n",
-    "The warning that you see here comes from the fact that names and PIDs are considered mere labels of a {obj}`.Particle` instance ― it is defined uniquely only by its quantum numbers, such as {attr}`~.Particle.spin` and {attr}`~.Particle.charge`. \n",
-    "    \n",
+    "The warning that you see here comes from the fact that names and PIDs are considered mere labels of a {obj}`.Particle` instance ― it is defined uniquely only by its quantum numbers, such as {attr}`~.Particle.spin` and {attr}`~.Particle.charge`.\n",
+    "\n",
     "The warning is suppressed in the rest of this page.\n",
     "```"
    ]
diff --git a/docs/usage/reaction.ipynb b/docs/usage/reaction.ipynb
index 3799cb3b..f35c3d54 100644
--- a/docs/usage/reaction.ipynb
+++ b/docs/usage/reaction.ipynb
@@ -1,62 +1,16 @@
 {
  "cells": [
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {
-    "hideCode": true,
-    "hideOutput": true,
-    "hidePrompt": true,
-    "jupyter": {
-     "source_hidden": true
-    },
-    "tags": [
-     "remove-cell",
-     "skip-execution"
-    ]
-   },
-   "outputs": [],
-   "source": [
-    "# WARNING: advised to install a specific version, e.g. qrules==0.1.2\n",
-    "%pip install -q qrules[doc,viz] IPython"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {
-    "hideCode": true,
-    "hideOutput": true,
-    "hidePrompt": true,
-    "jupyter": {
-     "source_hidden": true
-    },
-    "tags": [
-     "remove-cell"
-    ]
-   },
-   "outputs": [],
-   "source": [
-    "import os\n",
-    "\n",
-    "STATIC_WEB_PAGE = {\"EXECUTE_NB\", \"READTHEDOCS\"}.intersection(os.environ)"
-   ]
-  },
   {
    "cell_type": "markdown",
    "metadata": {},
    "source": [
+    "# Generate transitions\n",
+    "\n",
     "```{autolink-concat}\n",
+    "\n",
     "```"
    ]
   },
-  {
-   "cell_type": "markdown",
-   "metadata": {},
-   "source": [
-    "# Generate transitions"
-   ]
-  },
   {
    "cell_type": "markdown",
    "metadata": {},
@@ -174,7 +128,7 @@
    "metadata": {},
    "source": [
     "| Interaction          | Strength  |\n",
-    "|:-------------------- |:--------- |\n",
+    "| :------------------- | :-------- |\n",
     "| strong               | $60$      |\n",
     "| electromagnetic (EM) | $1$       |\n",
     "| weak                 | $10^{-4}$ |"
@@ -287,7 +241,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "````{admonition} About the number of solutions\n",
+    "```{admonition} About the number of solutions\n",
     "---\n",
     "class: dropdown\n",
     "----\n",
@@ -295,7 +249,7 @@
     "The \"number of {attr}`~.ReactionInfo.transitions`\" is the total number of allowed {obj}`.MutableTransition` instances that the {class}`.StateTransitionManager` has found. This also includes all allowed **spin projection combinations**. In this channel, we for example consider a $J/\\psi$ with spin projection $\\pm1$ that decays into a $\\gamma$ with spin projection $\\pm1$, which already gives us four possibilities.\n",
     "\n",
     "On the other hand, the intermediate state names that was extracted with {meth}`.ReactionInfo.get_intermediate_particles`, is just a {obj}`set` of the state names on the intermediate edges of the list of {attr}`~.ReactionInfo.transitions`, regardless of spin projection.\n",
-    "````"
+    "```"
    ]
   },
   {
@@ -446,7 +400,7 @@
    "metadata": {},
    "source": [
     "| decay                   | branching ratio |\n",
-    "|:----------------------- |:--------------- |\n",
+    "| :---------------------- | :-------------- |\n",
     "| $\\omega\\to\\gamma+\\pi^0$ | 0.0828          |\n",
     "| $\\rho^0\\to\\gamma+\\pi^0$ | 0.0006          |"
    ]
diff --git a/docs/usage/visualize.ipynb b/docs/usage/visualize.ipynb
index e0c42338..4868d893 100644
--- a/docs/usage/visualize.ipynb
+++ b/docs/usage/visualize.ipynb
@@ -1,62 +1,12 @@
 {
  "cells": [
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {
-    "hideCode": true,
-    "hideOutput": true,
-    "hidePrompt": true,
-    "jupyter": {
-     "source_hidden": true
-    },
-    "tags": [
-     "remove-cell",
-     "skip-execution"
-    ]
-   },
-   "outputs": [],
-   "source": [
-    "# WARNING: advised to install a specific version, e.g. qrules==0.1.2\n",
-    "%pip install -q qrules[doc,viz] IPython"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {
-    "hideCode": true,
-    "hideOutput": true,
-    "hidePrompt": true,
-    "jupyter": {
-     "source_hidden": true
-    },
-    "tags": [
-     "remove-cell"
-    ]
-   },
-   "outputs": [],
-   "source": [
-    "import os\n",
-    "\n",
-    "STATIC_WEB_PAGE = {\"EXECUTE_NB\", \"READTHEDOCS\"}.intersection(os.environ)"
-   ]
-  },
-  {
-   "cell_type": "markdown",
-   "metadata": {},
-   "source": [
-    "```{autolink-concat}\n",
-    "```"
-   ]
-  },
   {
    "cell_type": "markdown",
    "metadata": {},
    "source": [
     ":::{warning}\n",
-    "Currently the main user-interface is the ```StateTransitionManager```. There is work in progress to remove it and split its functionality into several functions/classes to separate concerns\n",
-    "and to facilitate the modification of intermediate results like the filtering of ```QNProblemSet```s, setting allowed interaction types, etc. (see below)\n",
+    "Currently the main user-interface is the `StateTransitionManager`. There is work in progress to remove it and split its functionality into several functions/classes to separate concerns\n",
+    "and to facilitate the modification of intermediate results like the filtering of `QNProblemSet`s, setting allowed interaction types, etc. (see below)\n",
     ":::"
    ]
   },
@@ -71,6 +21,10 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
+    "```{autolink-concat}\n",
+    "\n",
+    "```\n",
+    "\n",
     "````{margin}\n",
     "```{warning}\n",
     "{class}`graphviz.Source` requires your system to have DOT installed, see {doc}`Installation <graphviz:index>`.\n",
@@ -204,6 +158,7 @@
    "metadata": {},
    "source": [
     "(problem-sets)=\n",
+    "\n",
     "## {class}`.ProblemSet`s"
    ]
   },
@@ -742,6 +697,7 @@
    "metadata": {},
    "source": [
     "<!-- cspell:ignore darkgreen fontcolor fontsize penwidth -->\n",
+    "\n",
     "The {func}`.asdot` function also takes [Graphviz attributes](https://graphviz.org/doc/info/attrs.html). These can be used to modify the layout of the whole figure. Examples are the [`size`](https://graphviz.org/docs/attrs/size), [`color`](https://graphviz.org/docs/attrs/color), and [`fontcolor`](https://graphviz.org/docs/attrs/fontcolor). Edges and nodes can be styled with `edge_style` and `node_style` respectively:"
    ]
   },
diff --git a/pyproject.toml b/pyproject.toml
index d1dbd598..53081ca8 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -551,6 +551,7 @@ split-on-trailing-comma = false
     "INP001",
     "PLC2701",
     "PLR6301",
+    "RUF069",
     "S101",
     "S307",
     "SLF001",
diff --git a/src/qrules/_attrs.py b/src/qrules/_attrs.py
index a218a503..3248537d 100644
--- a/src/qrules/_attrs.py
+++ b/src/qrules/_attrs.py
@@ -8,7 +8,7 @@
 
 def to_fraction(value: SupportsFloat) -> Fraction:
     float_value = float(value)
-    if float_value == -0.0:
+    if float_value == -0.0:  # noqa: RUF069
         float_value = 0.0
     return Fraction(float_value)
 
diff --git a/src/qrules/combinatorics.py b/src/qrules/combinatorics.py
index 5a80a003..3c343f10 100644
--- a/src/qrules/combinatorics.py
+++ b/src/qrules/combinatorics.py
@@ -233,7 +233,7 @@ def fill_spin_projections(state: StateDefinition) -> StateWithSpins:
             particle_name = state
             particle = particle_db[particle_name]
             spin_projections = set(arange(-particle.spin, particle.spin + 1))
-            if particle.mass == 0.0 and Fraction(0) in spin_projections:
+            if particle.mass == 0.0 and Fraction(0) in spin_projections:  # noqa: RUF069
                 spin_projections.remove(Fraction(0))
             return particle_name, sorted(spin_projections)
         return state
diff --git a/src/qrules/conservation_rules.py b/src/qrules/conservation_rules.py
index d8a082bd..e7f49be8 100644
--- a/src/qrules/conservation_rules.py
+++ b/src/qrules/conservation_rules.py
@@ -222,7 +222,7 @@ def parity_conservation_helicity(
             sum(out_spins) - ingoing_edge_qns[0].spin_magnitude
         )
 
-        if all(x.spin_projection == 0.0 for x in outgoing_edge_qns) and prefactor == -1:
+        if all(x.spin_projection == 0.0 for x in outgoing_edge_qns) and prefactor == -1:  # noqa: RUF069
             return False
 
         return prefactor == parity_prefactor
@@ -448,7 +448,7 @@ def _is_clebsch_gordan_coefficient_zero(
     j_2 = spin2.magnitude
     proj = spin_coupled.projection
     mag = spin_coupled.magnitude
-    if ((j_1 == j_2 and m_1 == m_2) or (m_1 == 0.0 and m_2 == 0.0)) and abs(
+    if ((j_1 == j_2 and m_1 == m_2) or (m_1 == 0.0 and m_2 == 0.0)) and abs(  # noqa: RUF069
         mag - j_1 - j_2
     ) % 2 == 1:
         return True
@@ -858,7 +858,7 @@ def calculate_hypercharge(
     isospin_3 = Fraction(0)
     if edge_qns.isospin_projection:
         isospin_3 = edge_qns.isospin_projection
-    return float(edge_qns.charge) == isospin_3 + 0.5 * calculate_hypercharge(edge_qns)
+    return float(edge_qns.charge) == isospin_3 + 0.5 * calculate_hypercharge(edge_qns)  # noqa: RUF069
 
 
 @frozen
diff --git a/uv.lock b/uv.lock
index a7e9d4e4..7d2dbda4 100644
--- a/uv.lock
+++ b/uv.lock
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+    { url = "https://files.pythonhosted.org/packages/a1/27/fdc0e11a813e6338e0706e8b39bb7a1d61ea5b36873b351acee7e524a72a/ruff-0.15.1-py3-none-musllinux_1_2_x86_64.whl", hash = "sha256:3dd86dccb83cd7d4dcfac303ffc277e6048600dfc22e38158afa208e8bf94a1f", size = 11227302, upload-time = "2026-02-12T23:09:36.536Z" },
+    { url = "https://files.pythonhosted.org/packages/f6/58/ac864a75067dcbd3b95be5ab4eb2b601d7fbc3d3d736a27e391a4f92a5c1/ruff-0.15.1-py3-none-win32.whl", hash = "sha256:660975d9cb49b5d5278b12b03bb9951d554543a90b74ed5d366b20e2c57c2098", size = 10462555, upload-time = "2026-02-12T23:09:29.899Z" },
+    { url = "https://files.pythonhosted.org/packages/e0/5e/d4ccc8a27ecdb78116feac4935dfc39d1304536f4296168f91ed3ec00cd2/ruff-0.15.1-py3-none-win_amd64.whl", hash = "sha256:c820fef9dd5d4172a6570e5721704a96c6679b80cf7be41659ed439653f62336", size = 11599956, upload-time = "2026-02-12T23:09:01.157Z" },
+    { url = "https://files.pythonhosted.org/packages/2a/07/5bda6a85b220c64c65686bc85bd0bbb23b29c62b3a9f9433fa55f17cda93/ruff-0.15.1-py3-none-win_arm64.whl", hash = "sha256:5ff7d5f0f88567850f45081fac8f4ec212be8d0b963e385c3f7d0d2eb4899416", size = 10874604, upload-time = "2026-02-12T23:09:05.515Z" },
 ]
 
 [[package]]
@@ -2836,11 +2849,11 @@ wheels = [
 
 [[package]]
 name = "setuptools"
-version = "80.10.2"
+version = "82.0.0"
 source = { registry = "https://pypi.org/simple" }
-sdist = { url = "https://files.pythonhosted.org/packages/76/95/faf61eb8363f26aa7e1d762267a8d602a1b26d4f3a1e758e92cb3cb8b054/setuptools-80.10.2.tar.gz", hash = "sha256:8b0e9d10c784bf7d262c4e5ec5d4ec94127ce206e8738f29a437945fbc219b70", size = 1200343, upload-time = "2026-01-25T22:38:17.252Z" }
+sdist = { url = "https://files.pythonhosted.org/packages/82/f3/748f4d6f65d1756b9ae577f329c951cda23fb900e4de9f70900ced962085/setuptools-82.0.0.tar.gz", hash = "sha256:22e0a2d69474c6ae4feb01951cb69d515ed23728cf96d05513d36e42b62b37cb", size = 1144893, upload-time = "2026-02-08T15:08:40.206Z" }
 wheels = [
-    { url = "https://files.pythonhosted.org/packages/94/b8/f1f62a5e3c0ad2ff1d189590bfa4c46b4f3b6e49cef6f26c6ee4e575394d/setuptools-80.10.2-py3-none-any.whl", hash = "sha256:95b30ddfb717250edb492926c92b5221f7ef3fbcc2b07579bcd4a27da21d0173", size = 1064234, upload-time = "2026-01-25T22:38:15.216Z" },
+    { url = "https://files.pythonhosted.org/packages/e1/c6/76dc613121b793286a3f91621d7b75a2b493e0390ddca50f11993eadf192/setuptools-82.0.0-py3-none-any.whl", hash = "sha256:70b18734b607bd1da571d097d236cfcfacaf01de45717d59e6e04b96877532e0", size = 1003468, upload-time = "2026-02-08T15:08:38.723Z" },
 ]
 
 [[package]]
@@ -3546,11 +3559,11 @@ wheels = [
 
 [[package]]
 name = "wcwidth"
-version = "0.5.3"
+version = "0.6.0"
 source = { registry = "https://pypi.org/simple" }
-sdist = { url = "https://files.pythonhosted.org/packages/c2/62/a7c072fbfefb2980a00f99ca994279cb9ecf310cb2e6b2a4d2a28fe192b3/wcwidth-0.5.3.tar.gz", hash = "sha256:53123b7af053c74e9fe2e92ac810301f6139e64379031f7124574212fb3b4091", size = 157587, upload-time = "2026-01-31T03:52:10.92Z" }
+sdist = { url = "https://files.pythonhosted.org/packages/35/a2/8e3becb46433538a38726c948d3399905a4c7cabd0df578ede5dc51f0ec2/wcwidth-0.6.0.tar.gz", hash = "sha256:cdc4e4262d6ef9a1a57e018384cbeb1208d8abbc64176027e2c2455c81313159", size = 159684, upload-time = "2026-02-06T19:19:40.919Z" }
 wheels = [
-    { url = "https://files.pythonhosted.org/packages/3c/c1/d73f12f8cdb1891334a2ccf7389eed244d3941e74d80dd220badb937f3fb/wcwidth-0.5.3-py3-none-any.whl", hash = "sha256:d584eff31cd4753e1e5ff6c12e1edfdb324c995713f75d26c29807bb84bf649e", size = 92981, upload-time = "2026-01-31T03:52:09.14Z" },
+    { url = "https://files.pythonhosted.org/packages/68/5a/199c59e0a824a3db2b89c5d2dade7ab5f9624dbf6448dc291b46d5ec94d3/wcwidth-0.6.0-py3-none-any.whl", hash = "sha256:1a3a1e510b553315f8e146c54764f4fb6264ffad731b3d78088cdb1478ffbdad", size = 94189, upload-time = "2026-02-06T19:19:39.646Z" },
 ]
 
 [[package]]

From 72c5bdf85f069157acdd7121ca3049b6d3a049c9 Mon Sep 17 00:00:00 2001
From: GitHub <noreply@github.com>
Date: Tue, 17 Feb 2026 09:59:21 +0000
Subject: [PATCH 4/8] MAINT: implement updates from formatters

---
 docs/usage/conservation.ipynb    | 2 +-
 docs/usage/custom-topology.ipynb | 2 +-
 docs/usage/ls-coupling.ipynb     | 2 +-
 docs/usage/particle.ipynb        | 2 +-
 docs/usage/visualize.ipynb       | 2 +-
 5 files changed, 5 insertions(+), 5 deletions(-)

diff --git a/docs/usage/conservation.ipynb b/docs/usage/conservation.ipynb
index 0c676e5f..ea988f77 100644
--- a/docs/usage/conservation.ipynb
+++ b/docs/usage/conservation.ipynb
@@ -371,7 +371,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.13.8"
+   "version": "3.13.12"
   }
  },
  "nbformat": 4,
diff --git a/docs/usage/custom-topology.ipynb b/docs/usage/custom-topology.ipynb
index f2565e66..de7bc429 100644
--- a/docs/usage/custom-topology.ipynb
+++ b/docs/usage/custom-topology.ipynb
@@ -255,7 +255,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.13.8"
+   "version": "3.13.12"
   }
  },
  "nbformat": 4,
diff --git a/docs/usage/ls-coupling.ipynb b/docs/usage/ls-coupling.ipynb
index 0db72c47..a042ee50 100644
--- a/docs/usage/ls-coupling.ipynb
+++ b/docs/usage/ls-coupling.ipynb
@@ -301,7 +301,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.13.8"
+   "version": "3.13.12"
   }
  },
  "nbformat": 4,
diff --git a/docs/usage/particle.ipynb b/docs/usage/particle.ipynb
index 0540fa0c..247af236 100644
--- a/docs/usage/particle.ipynb
+++ b/docs/usage/particle.ipynb
@@ -432,7 +432,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.13.8"
+   "version": "3.13.12"
   }
  },
  "nbformat": 4,
diff --git a/docs/usage/visualize.ipynb b/docs/usage/visualize.ipynb
index 4868d893..8a4cf360 100644
--- a/docs/usage/visualize.ipynb
+++ b/docs/usage/visualize.ipynb
@@ -748,7 +748,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.13.8"
+   "version": "3.13.12"
   }
  },
  "nbformat": 4,

From 54090dcf317f9ec3f02d37f73bfeb82c27ff0c8f Mon Sep 17 00:00:00 2001
From: Remco de Boer <29308176+redeboer@users.noreply.github.com>
Date: Tue, 17 Feb 2026 11:14:57 +0100
Subject: [PATCH 5/8] FIX: use correct Graphviz syntax for `rank=same`

---
 src/qrules/io/_dot.py     |   4 +-
 tests/unit/io/test_dot.py | 138 ++++++++++++++++++++------------------
 2 files changed, 76 insertions(+), 66 deletions(-)

diff --git a/src/qrules/io/_dot.py b/src/qrules/io/_dot.py
index 4784d23d..db35d60e 100644
--- a/src/qrules/io/_dot.py
+++ b/src/qrules/io/_dot.py
@@ -247,8 +247,8 @@ def _get_graphviz_node(edge_id: int, node_id: int | None = None) -> str:
 
 def _create_same_rank_line(node_edge_ids: Iterable[int], prefix: str = "") -> str:
     name_list = [f"{prefix}{_get_graphviz_node(i)}" for i in node_edge_ids]
-    name_string = ", ".join(name_list)
-    return f"{{ rank=same {name_string} }}"
+    name_string = " ".join(name_list)
+    return f"{{ rank=same; {name_string} }}"
 
 
 def _create_edge_label(
diff --git a/tests/unit/io/test_dot.py b/tests/unit/io/test_dot.py
index 566cd821..e3e43715 100644
--- a/tests/unit/io/test_dot.py
+++ b/tests/unit/io/test_dot.py
@@ -31,18 +31,18 @@
 
 def test_asdot(reaction: ReactionInfo):
     for transition in reaction.transitions:
-        dot_data = io.asdot(transition)
-        assert pydot.graph_from_dot_data(dot_data) is not None
-    dot_data = io.asdot(reaction)
-    assert pydot.graph_from_dot_data(dot_data) is not None
-    dot_data = io.asdot(reaction, strip_spin=True)
-    assert pydot.graph_from_dot_data(dot_data) is not None
-    dot_data = io.asdot(reaction, collapse_graphs=True)
-    assert pydot.graph_from_dot_data(dot_data) is not None
+        src = io.asdot(transition)
+        assert is_valid_dot(src)
+    src = io.asdot(reaction)
+    assert is_valid_dot(src)
+    src = io.asdot(reaction, strip_spin=True)
+    assert is_valid_dot(src)
+    src = io.asdot(reaction, collapse_graphs=True)
+    assert is_valid_dot(src)
 
 
 def test_asdot_exact_format(reaction: ReactionInfo):
-    dot = io.asdot(reaction.transitions[0], render_node=True)
+    src = io.asdot(reaction.transitions[0], render_node=True)
     if reaction.formalism == "helicity":
         expected_dot = """
 digraph {
@@ -54,8 +54,8 @@ def test_asdot_exact_format(reaction: ReactionInfo):
     1 [label="1: pi0[0]"]
     2 [label="2: pi0[0]"]
     A [label="J/psi(1S)[-1]"]
-    { rank=same A }
-    { rank=same 0, 1, 2 }
+    { rank=same; A }
+    { rank=same; 0 1 2 }
     A -> N0
     N0 -> N1 [label="f(0)(980)[0]"]
     N0 -> 0
@@ -76,8 +76,8 @@ def test_asdot_exact_format(reaction: ReactionInfo):
     1 [label="1: pi0[0]"]
     2 [label="2: pi0[0]"]
     A [label="J/psi(1S)[-1]"]
-    { rank=same A }
-    { rank=same 0, 1, 2 }
+    { rank=same; A }
+    { rank=same; 0 1 2 }
     A -> N0
     N0 -> N1 [label="f(0)(980)[0]"]
     N0 -> 0
@@ -87,50 +87,50 @@ def test_asdot_exact_format(reaction: ReactionInfo):
     N1 [label="L=|0,0⟩\nS=|0,0⟩\nP=+1"]
 }
         """
-    assert dot.strip() == expected_dot.strip()
+    assert src.strip() == expected_dot.strip()
 
 
 def test_asdot_graphviz_attrs(reaction: ReactionInfo):
-    dot_data = io.asdot(reaction, size=12)
-    assert pydot.graph_from_dot_data(dot_data) is not None
-    dot_data = io.asdot(reaction, bgcolor="red", size=12)
-    assert pydot.graph_from_dot_data(dot_data) is not None
-    assert '\n    bgcolor="red"\n' in dot_data
-    assert "\n    size=12\n" in dot_data
-    assert "bgcolor=none" not in dot_data
+    src = io.asdot(reaction, size=12)
+    assert is_valid_dot(src)
+    src = io.asdot(reaction, bgcolor="red", size=12)
+    assert is_valid_dot(src)
+    assert '\n    bgcolor="red"\n' in src
+    assert "\n    size=12\n" in src
+    assert "bgcolor=none" not in src
 
 
 def test_asdot_qn_problem_set(qn_problem_and_result: tuple[QNProblemSet, QNResult]):
     qn_problem_set, _ = qn_problem_and_result
-    dot_data = qrules.io.asdot(qn_problem_set, render_node=True)
-    assert pydot.graph_from_dot_data(dot_data) is not None
+    src = qrules.io.asdot(qn_problem_set, render_node=True)
+    assert is_valid_dot(src)
 
 
 def test_asdot_with_styled_edges_and_nodes(reaction: ReactionInfo, output_dir):
     transition = reaction.transitions[0]
-    dot = io.asdot(
+    src = io.asdot(
         transition,
         edge_style={"fontcolor": "blue"},
         node_style={"fontcolor": "darkgreen", "shape": "ellipse"},
     )
-    assert pydot.graph_from_dot_data(dot) is not None
+    assert is_valid_dot(src)
     with open(output_dir + f"styled_{reaction.formalism}.gv", "w") as stream:
-        stream.write(dot)
-    assert '0 [fontcolor="blue", label="0: gamma[-1]"]' in dot
-    assert 'N0 -> N1 [fontcolor="blue", label="f(0)(980)[0]"]' in dot
-    assert 'N0 [fontcolor="darkgreen", shape="ellipse", label=""]' in dot
+        stream.write(src)
+    assert '0 [fontcolor="blue", label="0: gamma[-1]"]' in src
+    assert 'N0 -> N1 [fontcolor="blue", label="f(0)(980)[0]"]' in src
+    assert 'N0 [fontcolor="darkgreen", shape="ellipse", label=""]' in src
 
 
 def test_asdot_no_label_overwriting(reaction: ReactionInfo):
     transition = reaction.transitions[0]
     label = "should be ignored"
-    dot_data = io.asdot(
+    src = io.asdot(
         transition,
         edge_style={"label": label},
         node_style={"label": label},
     )
-    assert pydot.graph_from_dot_data(dot_data) is not None
-    assert label not in dot_data
+    assert is_valid_dot(src)
+    assert label not in src
 
 
 @pytest.mark.parametrize(
@@ -146,28 +146,28 @@ def test_asdot_problemset(formalism: SpinFormalism):
     problem_sets = stm.create_problem_sets()
     for problem_set_list in problem_sets.values():
         for problem_set in problem_set_list:
-            dot_data = io.asdot(problem_set)
-            assert pydot.graph_from_dot_data(dot_data) is not None
+            src = io.asdot(problem_set)
+            assert is_valid_dot(src)
             topology = problem_set.topology
             initial_facts = problem_set.initial_facts
             settings = problem_set.solving_settings
-            dot_data = io.asdot([(topology, initial_facts)])
-            assert pydot.graph_from_dot_data(dot_data) is not None
-            dot_data = io.asdot([(topology, settings)])
-            assert pydot.graph_from_dot_data(dot_data) is not None
-        dot_data = io.asdot(problem_set_list)
-        assert pydot.graph_from_dot_data(dot_data) is not None
+            src = io.asdot([(topology, initial_facts)])
+            assert is_valid_dot(src)
+            src = io.asdot([(topology, settings)])
+            assert is_valid_dot(src)
+        src = io.asdot(problem_set_list)
+        assert is_valid_dot(src)
 
 
 def test_asdot_topology():
-    dot_data = io.asdot(create_n_body_topology(3, 4))
-    assert pydot.graph_from_dot_data(dot_data) is not None
-    dot_data = io.asdot(create_isobar_topologies(2))
-    assert pydot.graph_from_dot_data(dot_data) is not None
-    dot_data = io.asdot(create_isobar_topologies(3))
-    assert pydot.graph_from_dot_data(dot_data) is not None
-    dot_data = io.asdot(create_isobar_topologies(4))
-    assert pydot.graph_from_dot_data(dot_data) is not None
+    src = io.asdot(create_n_body_topology(3, 4))
+    assert is_valid_dot(src)
+    src = io.asdot(create_isobar_topologies(2))
+    assert is_valid_dot(src)
+    src = io.asdot(create_isobar_topologies(3))
+    assert is_valid_dot(src)
+    src = io.asdot(create_isobar_topologies(4))
+    assert is_valid_dot(src)
 
 
 def test_as_string_dict(
@@ -181,7 +181,7 @@ def test_as_string_dict(
     node_setting = problem_set.solving_settings.interactions[0]
     intermediate_setting, *_ = problem_set.solving_settings.intermediate_states.values()
 
-    dot = as_string(intermediate_setting).strip()
+    src = as_string(intermediate_setting).strip()
     expected_dot = dedent("""
         RULES
         spin_validity - 62
@@ -205,9 +205,9 @@ def test_as_string_dict(
         tau_lepton_number ∊ [0]
         topness ∊ [0]
     """).strip()
-    assert dot == expected_dot
+    assert src == expected_dot
 
-    dot = as_string(node_setting).strip()
+    src = as_string(node_setting).strip()
     expected_dot = dedent("""
         RULES
         clebsch_gordan_helicity_to_canonical - NA
@@ -236,9 +236,9 @@ def test_as_string_dict(
         s_magnitude ∊ [0, 1/2, 1, 3/2, 2]
         s_projection ∊ [-2, -3/2, -1, -1/2, 0, +1/2, +1, +3/2, +2]
     """).strip()
-    assert dot == expected_dot
+    assert src == expected_dot
 
-    dot = as_string(interaction).strip()
+    src = as_string(interaction).strip()
     expected_dot = dedent("""
         l_magnitude = 0
         s_magnitude = 1/2
@@ -246,9 +246,9 @@ def test_as_string_dict(
         s_projection = -1/2
         parity_prefactor = +1
     """).strip()
-    assert dot == expected_dot
+    assert src == expected_dot
 
-    dot = as_string(intermediate_state).strip()
+    src = as_string(intermediate_state).strip()
     expected_dot = dedent("""
         spin_magnitude = 1/2
         spin_projection = +1/2
@@ -262,7 +262,7 @@ def test_as_string_dict(
         mass = 1.75
         width = 0.15
     """).strip()
-    assert dot == expected_dot
+    assert src == expected_dot
 
 
 def test_as_string_spin_tuple(particle_database: ParticleCollection):
@@ -300,8 +300,8 @@ def test_write_topology(self, output_dir):
             filename=output_file,
         )
         with open(output_file) as stream:
-            dot_data = stream.read()
-        assert pydot.graph_from_dot_data(dot_data) is not None
+            src = stream.read()
+        assert is_valid_dot(src)
 
     def test_write_single_graph(self, output_dir: str, reaction: ReactionInfo):
         for i, transition in enumerate(reaction.transitions):
@@ -311,16 +311,16 @@ def test_write_single_graph(self, output_dir: str, reaction: ReactionInfo):
                 filename=output_file,
             )
             with open(output_file) as stream:
-                dot_data = stream.read()
-            assert pydot.graph_from_dot_data(dot_data) is not None
+                src = stream.read()
+            assert is_valid_dot(src)
 
     def test_write_graph_list(self, output_dir: str, reaction: ReactionInfo):
         for i, transition in enumerate(reaction.transitions):
             output_file = output_dir + f"test_graph_list_{i}.gv"
             io.write(transition, filename=output_file)
             with open(output_file) as stream:
-                dot_data = stream.read()
-            assert pydot.graph_from_dot_data(dot_data) is not None
+                src = stream.read()
+            assert is_valid_dot(src)
 
     def test_write_strip_spin(self, output_dir: str, reaction: ReactionInfo):
         output_file = output_dir + "test_particle_graphs.gv"
@@ -329,8 +329,8 @@ def test_write_strip_spin(self, output_dir: str, reaction: ReactionInfo):
             filename=output_file,
         )
         with open(output_file) as stream:
-            dot_data = stream.read()
-        assert pydot.graph_from_dot_data(dot_data) is not None
+            src = stream.read()
+        assert is_valid_dot(src)
 
 
 def test_collapse_graphs(
@@ -419,3 +419,13 @@ def qn_problem_and_result(
     qn_solutions = stm.find_quantum_number_transitions(problem_sets)
     strong_qn_solutions = qn_solutions[3600.0]
     return strong_qn_solutions[1]
+
+
+def is_valid_dot(src: str) -> bool:
+    try:
+        graphs = pydot.graph_from_dot_data(src)
+        if graphs is None:
+            return False
+        return len(graphs) > 0
+    except pydot.Error:
+        return False

From 533cab489bd17e6ec144642e2082416431782eee Mon Sep 17 00:00:00 2001
From: Remco de Boer <29308176+redeboer@users.noreply.github.com>
Date: Tue, 17 Feb 2026 11:20:16 +0100
Subject: [PATCH 6/8] FIX: update links to AmpForm

---
 docs/usage.ipynb          | 2 +-
 docs/usage/reaction.ipynb | 4 ++--
 2 files changed, 3 insertions(+), 3 deletions(-)

diff --git a/docs/usage.ipynb b/docs/usage.ipynb
index fcec2b12..544f87d9 100644
--- a/docs/usage.ipynb
+++ b/docs/usage.ipynb
@@ -82,7 +82,7 @@
    "source": [
     ":::{seealso}\n",
     "\n",
-    "{doc}`/usage/reaction` and {doc}`ampform:usage/amplitude`\n",
+    "{doc}`/usage/reaction` and {doc}`ampform:amplitude`\n",
     "\n",
     ":::"
    ]
diff --git a/docs/usage/reaction.ipynb b/docs/usage/reaction.ipynb
index f35c3d54..d8858330 100644
--- a/docs/usage/reaction.ipynb
+++ b/docs/usage/reaction.ipynb
@@ -19,7 +19,7 @@
     "\n",
     "QRules is responsible to give you advice on the form of an amplitude model, based on the problem set you define (initial state, final state, allowed interactions, intermediate states, etc.). Internally, the system propagates the quantum numbers through the reaction graph while satisfying the specified conservation rules. How to control this procedure is explained in more detail below.\n",
     "\n",
-    "Afterwards, the amplitude model produced by {doc}`AmpForm <ampform:index>` can be exported into [TensorWaves](https://tensorwaves.rtfd.io). The model can for instance be used to generate a data set (toy Monte Carlo) for this reaction and to optimize its parameters to resemble an actual data set as good as possible. For more info on that see {doc}`ampform:usage/amplitude`."
+    "Afterwards, the amplitude model produced by {doc}`AmpForm <ampform:index>` can be exported into [TensorWaves](https://tensorwaves.rtfd.io). The model can for instance be used to generate a data set (toy Monte Carlo) for this reaction and to optimize its parameters to resemble an actual data set as good as possible. For more info on that see {doc}`ampform:amplitude`."
    ]
   },
   {
@@ -550,7 +550,7 @@
    "metadata": {},
    "source": [
     "```{tip}\n",
-    "The {mod}`ampform` package can formulate amplitude models based on the state transitions created by {mod}`qrules`. See {doc}`ampform:usage/amplitude`.\n",
+    "The {mod}`ampform` package can formulate amplitude models based on the state transitions created by {mod}`qrules`. See {doc}`ampform:amplitude`.\n",
     "```"
    ]
   }

From 1563a140ed1f7e580ca685a9efba8dcea4ab4b2e Mon Sep 17 00:00:00 2001
From: Remco de Boer <29308176+redeboer@users.noreply.github.com>
Date: Tue, 17 Feb 2026 11:22:48 +0100
Subject: [PATCH 7/8] DX: hide Sphinx deprecation warnings

---
 docs/conf.py | 3 +++
 1 file changed, 3 insertions(+)

diff --git a/docs/conf.py b/docs/conf.py
index 089647e5..23e3d5ac 100644
--- a/docs/conf.py
+++ b/docs/conf.py
@@ -3,7 +3,9 @@
 import os
 import sys
 import typing
+import warnings
 
+from sphinx.deprecation import RemovedInSphinx10Warning
 from sphinx_api_relink.helpers import (
     get_branch_name,
     get_execution_mode,
@@ -33,6 +35,7 @@ def __get_newtypes(some_type: type) -> list:
         "8.12.3": "8.12.1",
     },
 })
+warnings.filterwarnings("ignore", category=RemovedInSphinx10Warning)
 
 BRANCH = get_branch_name()
 ORGANIZATION = "ComPWA"

From a8528e236c22a3551117717536f5fc20f1581c6f Mon Sep 17 00:00:00 2001
From: Remco de Boer <29308176+redeboer@users.noreply.github.com>
Date: Tue, 17 Feb 2026 11:39:25 +0100
Subject: [PATCH 8/8] MAINT: use colon fenceds for `autolink-concat`

---
 .pre-commit-config.yaml          | 2 +-
 docs/usage.ipynb                 | 5 ++---
 docs/usage/conservation.ipynb    | 5 ++---
 docs/usage/custom-topology.ipynb | 5 ++---
 docs/usage/ls-coupling.ipynb     | 5 ++---
 docs/usage/particle.ipynb        | 5 ++---
 docs/usage/reaction.ipynb        | 5 ++---
 docs/usage/visualize.ipynb       | 5 ++---
 8 files changed, 15 insertions(+), 22 deletions(-)

diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index a80d4478..914e3165 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -15,7 +15,7 @@ repos:
       - id: check-useless-excludes
 
   - repo: https://github.com/ComPWA/policy
-    rev: 0.8.4
+    rev: 0.8.5
     hooks:
       - id: check-dev-files
         args:
diff --git a/docs/usage.ipynb b/docs/usage.ipynb
index 544f87d9..56c2a8ca 100644
--- a/docs/usage.ipynb
+++ b/docs/usage.ipynb
@@ -11,9 +11,8 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "```{autolink-concat}\n",
-    "\n",
-    "```\n",
+    ":::{autolink-concat}\n",
+    ":::\n",
     "\n",
     "```{thebe-button}\n",
     "\n",
diff --git a/docs/usage/conservation.ipynb b/docs/usage/conservation.ipynb
index ea988f77..cba1a8fd 100644
--- a/docs/usage/conservation.ipynb
+++ b/docs/usage/conservation.ipynb
@@ -6,9 +6,8 @@
    "source": [
     "# Conservation rules\n",
     "\n",
-    "```{autolink-concat}\n",
-    "\n",
-    "```"
+    ":::{autolink-concat}\n",
+    ":::"
    ]
   },
   {
diff --git a/docs/usage/custom-topology.ipynb b/docs/usage/custom-topology.ipynb
index de7bc429..f7fc2e33 100644
--- a/docs/usage/custom-topology.ipynb
+++ b/docs/usage/custom-topology.ipynb
@@ -6,9 +6,8 @@
    "source": [
     "# Custom topologies\n",
     "\n",
-    "```{autolink-concat}\n",
-    "\n",
-    "```"
+    ":::{autolink-concat}\n",
+    ":::"
    ]
   },
   {
diff --git a/docs/usage/ls-coupling.ipynb b/docs/usage/ls-coupling.ipynb
index a042ee50..bce06758 100644
--- a/docs/usage/ls-coupling.ipynb
+++ b/docs/usage/ls-coupling.ipynb
@@ -6,9 +6,8 @@
    "source": [
     "# LS-couplings\n",
     "\n",
-    "```{autolink-concat}\n",
-    "\n",
-    "```"
+    ":::{autolink-concat}\n",
+    ":::"
    ]
   },
   {
diff --git a/docs/usage/particle.ipynb b/docs/usage/particle.ipynb
index 247af236..82427f0a 100644
--- a/docs/usage/particle.ipynb
+++ b/docs/usage/particle.ipynb
@@ -6,9 +6,8 @@
    "source": [
     "# Particle database\n",
     "\n",
-    "```{autolink-concat}\n",
-    "\n",
-    "```"
+    ":::{autolink-concat}\n",
+    ":::"
    ]
   },
   {
diff --git a/docs/usage/reaction.ipynb b/docs/usage/reaction.ipynb
index d8858330..5ba6287c 100644
--- a/docs/usage/reaction.ipynb
+++ b/docs/usage/reaction.ipynb
@@ -6,9 +6,8 @@
    "source": [
     "# Generate transitions\n",
     "\n",
-    "```{autolink-concat}\n",
-    "\n",
-    "```"
+    ":::{autolink-concat}\n",
+    ":::"
    ]
   },
   {
diff --git a/docs/usage/visualize.ipynb b/docs/usage/visualize.ipynb
index 8a4cf360..d5b27a92 100644
--- a/docs/usage/visualize.ipynb
+++ b/docs/usage/visualize.ipynb
@@ -21,9 +21,8 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "```{autolink-concat}\n",
-    "\n",
-    "```\n",
+    ":::{autolink-concat}\n",
+    ":::\n",
     "\n",
     "````{margin}\n",
     "```{warning}\n",