From 9dda188dc8f6b7d929cdc053c51b6961287ea2ee Mon Sep 17 00:00:00 2001
From: Remco de Boer <29308176+redeboer@users.noreply.github.com>
Date: Mon, 28 Oct 2024 14:27:41 +0100
Subject: [PATCH 01/12] MAINT: update lock files

---
 .pre-commit-config.yaml |   6 +-
 uv.lock                 | 271 ++++++++++++++++++++--------------------
 2 files changed, 139 insertions(+), 138 deletions(-)

diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index aadc897..358d8a0 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -9,7 +9,7 @@ repos:
       - id: check-useless-excludes
 
   - repo: https://github.com/ComPWA/policy
-    rev: 0.5.0
+    rev: 0.5.3
     hooks:
       - id: check-dev-files
         args:
@@ -51,7 +51,7 @@ repos:
             metadata.vscode
 
   - repo: https://github.com/astral-sh/ruff-pre-commit
-    rev: v0.7.0
+    rev: v0.7.1
     hooks:
       - id: ruff
         args: [--fix]
@@ -105,6 +105,6 @@ repos:
           )$
 
   - repo: https://github.com/astral-sh/uv-pre-commit
-    rev: 0.4.24
+    rev: 0.4.27
     hooks:
       - id: uv-lock
diff --git a/uv.lock b/uv.lock
index 9926a6c..37e2ccc 100644
--- a/uv.lock
+++ b/uv.lock
@@ -969,7 +969,7 @@ wheels = [
 
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-version = "8.28.0"
+version = "8.29.0"
 source = { registry = "https://pypi.org/simple" }
 dependencies = [
     { name = "colorama", marker = "sys_platform == 'win32'" },
@@ -982,9 +982,9 @@ dependencies = [
     { name = "stack-data" },
     { name = "traitlets" },
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+sdist = { url = "https://files.pythonhosted.org/packages/85/e0/a3f36dde97e12121106807d80485423ae4c5b27ce60d40d4ab0bab18a9db/ipython-8.29.0.tar.gz", hash = "sha256:40b60e15b22591450eef73e40a027cf77bd652e757523eebc5bd7c7c498290eb", size = 5497513 }
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+    { url = "https://files.pythonhosted.org/packages/c5/a5/c15ed187f1b3fac445bb42a2dedd8dec1eee1718b35129242049a13a962f/ipython-8.29.0-py3-none-any.whl", hash = "sha256:0188a1bd83267192123ccea7f4a8ed0a78910535dbaa3f37671dca76ebd429c8", size = 819911 },
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@@ -1026,7 +1026,7 @@ wheels = [
 
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+version = "0.4.35"
 source = { registry = "https://pypi.org/simple" }
 dependencies = [
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@@ -1035,14 +1035,14 @@ dependencies = [
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     { name = "scipy" },
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-version = "0.4.34"
+version = "0.4.35"
 source = { registry = "https://pypi.org/simple" }
 dependencies = [
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@@ -1050,16 +1050,16 @@ dependencies = [
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@@ -3254,14 +3255,14 @@ wheels = [
 
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 [[package]]

From 09b6d4071864bd4f9fa6f3955faf60217e1254e9 Mon Sep 17 00:00:00 2001
From: Remco de Boer <29308176+redeboer@users.noreply.github.com>
Date: Mon, 28 Oct 2024 14:27:42 +0100
Subject: [PATCH 02/12] FIX: remove duplicate `taplo` pre-commit hook

---
 .pre-commit-config.yaml | 5 -----
 1 file changed, 5 deletions(-)

diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index 358d8a0..46f27f6 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -81,11 +81,6 @@ repos:
     hooks:
       - id: taplo-format
 
-  - repo: https://github.com/ComPWA/taplo-pre-commit
-    rev: v0.9.3
-    hooks:
-      - id: taplo-format
-
   - repo: https://github.com/pappasam/toml-sort
     rev: v0.23.1
     hooks:

From ebdb04f18e3359121141c6064ee3f6c5082baa1d Mon Sep 17 00:00:00 2001
From: Remco de Boer <29308176+redeboer@users.noreply.github.com>
Date: Mon, 28 Oct 2024 14:27:42 +0100
Subject: [PATCH 03/12] FIX: remove `pre-commit-uv` and `tox` from environment

---
 pyproject.toml |   3 -
 uv.lock        | 169 -------------------------------------------------
 2 files changed, 172 deletions(-)

diff --git a/pyproject.toml b/pyproject.toml
index c6b9e1d..db594b7 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -17,7 +17,6 @@ dependencies = [
     "numpy",
     "pandas",
     "phasespace",
-    "pre-commit-uv",
     "python-lsp-ruff",
     "python-lsp-server",
     "qrules",
@@ -41,8 +40,6 @@ dev = [
     "gluex-nstar[doc]",
     "gluex-nstar[jupyter]",
     "gluex-nstar[sty]",
-    "pre-commit-uv",
-    "tox",
 ]
 doc = [
     "sphinx-autobuild",
diff --git a/uv.lock b/uv.lock
index 37e2ccc..6f2c466 100644
--- a/uv.lock
+++ b/uv.lock
@@ -207,15 +207,6 @@ wheels = [
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-[[package]]
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@@ -452,15 +425,6 @@ wheels = [
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-version = "0.3.9"
-source = { registry = "https://pypi.org/simple" }
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@@ -512,15 +476,6 @@ wheels = [
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-version = "3.16.1"
-source = { registry = "https://pypi.org/simple" }
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-
 [[package]]
 name = "flatbuffers"
 version = "24.3.25"
@@ -612,7 +567,6 @@ dependencies = [
     { name = "numpy" },
     { name = "pandas" },
     { name = "phasespace" },
-    { name = "pre-commit-uv" },
     { name = "python-lsp-ruff" },
     { name = "python-lsp-server" },
     { name = "qrules" },
@@ -633,7 +587,6 @@ dev = [
     { name = "jupyterlab-git" },
     { name = "jupyterlab-lsp" },
     { name = "jupyterlab-myst" },
-    { name = "pre-commit-uv" },
     { name = "python-lsp-ruff" },
     { name = "python-lsp-server", extra = ["rope"] },
     { name = "ruff" },
@@ -641,7 +594,6 @@ dev = [
     { name = "sphinx-book-theme" },
     { name = "sphinx-comments" },
     { name = "sphinx-copybutton" },
-    { name = "tox" },
 ]
 doc = [
     { name = "sphinx-autobuild" },
@@ -684,8 +636,6 @@ requires-dist = [
     { name = "numpy" },
     { name = "pandas" },
     { name = "phasespace" },
-    { name = "pre-commit-uv" },
-    { name = "pre-commit-uv", marker = "extra == 'dev'" },
     { name = "python-lsp-ruff" },
     { name = "python-lsp-ruff", marker = "extra == 'jupyter'" },
     { name = "python-lsp-server" },
@@ -704,7 +654,6 @@ requires-dist = [
     { name = "sympy" },
     { name = "tensorflow" },
     { name = "tensorwaves" },
-    { name = "tox", marker = "extra == 'dev'" },
 ]
 
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@@ -1774,15 +1714,6 @@ wheels = [
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From 797df3ccbacb26767f7b292bbeab036a6ade8166 Mon Sep 17 00:00:00 2001
From: Remco de Boer <29308176+redeboer@users.noreply.github.com>
Date: Mon, 28 Oct 2024 14:27:42 +0100
Subject: [PATCH 04/12] DX: define `tox -e nb` job

---
 pyproject.toml |  9 +++++++++
 uv.lock        | 54 ++++++++++++++++++++++++++++++++++++++++++++++----
 2 files changed, 59 insertions(+), 4 deletions(-)

diff --git a/pyproject.toml b/pyproject.toml
index db594b7..337b90b 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -40,6 +40,7 @@ dev = [
     "gluex-nstar[doc]",
     "gluex-nstar[jupyter]",
     "gluex-nstar[sty]",
+    "gluex-nstar[test]",
 ]
 doc = [
     "sphinx-autobuild",
@@ -57,6 +58,7 @@ jupyter = [
     "python-lsp-server[rope]",
 ]
 sty = ["ruff"]
+test = ["nbmake"]
 
 [tool.ruff]
 extend-include = ["*.ipynb"]
@@ -251,6 +253,13 @@ description = Check external links in the documentation (requires internet conne
 setenv =
     {[testenv:doclive]setenv}
 
+[testenv:nb]
+allowlist_externals =
+    pytest
+commands =
+    pytest --nbmake {posargs:docs}
+description = Run all notebooks with pytest
+
 [testenv:sty]
 allowlist_externals =
     pre-commit
diff --git a/uv.lock b/uv.lock
index 6f2c466..4f5f3f7 100644
--- a/uv.lock
+++ b/uv.lock
@@ -587,6 +587,7 @@ dev = [
     { name = "jupyterlab-git" },
     { name = "jupyterlab-lsp" },
     { name = "jupyterlab-myst" },
+    { name = "nbmake" },
     { name = "python-lsp-ruff" },
     { name = "python-lsp-server", extra = ["rope"] },
     { name = "ruff" },
@@ -613,6 +614,9 @@ jupyter = [
 sty = [
     { name = "ruff" },
 ]
+test = [
+    { name = "nbmake" },
+]
 
 [package.metadata]
 requires-dist = [
@@ -621,6 +625,7 @@ requires-dist = [
     { name = "gluex-nstar", extras = ["doc"], marker = "extra == 'dev'" },
     { name = "gluex-nstar", extras = ["jupyter"], marker = "extra == 'dev'" },
     { name = "gluex-nstar", extras = ["sty"], marker = "extra == 'dev'" },
+    { name = "gluex-nstar", extras = ["test"], marker = "extra == 'dev'" },
     { name = "graphviz" },
     { name = "ipympl" },
     { name = "ipywidgets" },
@@ -633,6 +638,7 @@ requires-dist = [
     { name = "jupyterlab-myst", marker = "extra == 'jupyter'" },
     { name = "matplotlib" },
     { name = "myst-nb" },
+    { name = "nbmake", marker = "extra == 'test'" },
     { name = "numpy" },
     { name = "pandas" },
     { name = "phasespace" },
@@ -865,6 +871,15 @@ wheels = [
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 ]
 
+[[package]]
+name = "iniconfig"
+version = "2.0.0"
+source = { registry = "https://pypi.org/simple" }
+sdist = { url = "https://files.pythonhosted.org/packages/d7/4b/cbd8e699e64a6f16ca3a8220661b5f83792b3017d0f79807cb8708d33913/iniconfig-2.0.0.tar.gz", hash = "sha256:2d91e135bf72d31a410b17c16da610a82cb55f6b0477d1a902134b24a455b8b3", size = 4646 }
+wheels = [
+    { url = "https://files.pythonhosted.org/packages/ef/a6/62565a6e1cf69e10f5727360368e451d4b7f58beeac6173dc9db836a5b46/iniconfig-2.0.0-py3-none-any.whl", hash = "sha256:b6a85871a79d2e3b22d2d1b94ac2824226a63c6b741c88f7ae975f18b6778374", size = 5892 },
+]
+
 [[package]]
 name = "ipykernel"
 version = "6.29.5"
@@ -1631,17 +1646,17 @@ wheels = [
 
 [[package]]
 name = "nbclient"
-version = "0.10.0"
+version = "0.6.8"
 source = { registry = "https://pypi.org/simple" }
 dependencies = [
     { name = "jupyter-client" },
-    { name = "jupyter-core" },
     { name = "nbformat" },
+    { name = "nest-asyncio" },
     { name = "traitlets" },
 ]
-sdist = { url = "https://files.pythonhosted.org/packages/e2/d2/39bc36604f24bccd44d374ac34769bc58c53a1da5acd1e83f0165aa4940e/nbclient-0.10.0.tar.gz", hash = "sha256:4b3f1b7dba531e498449c4db4f53da339c91d449dc11e9af3a43b4eb5c5abb09", size = 62246 }
+sdist = { url = "https://files.pythonhosted.org/packages/01/21/917a25fbc2b37ed37135be97efb4c98526008505451ffa841adcd7d11ed5/nbclient-0.6.8.tar.gz", hash = "sha256:268fde3457cafe1539e32eb1c6d796bbedb90b9e92bacd3e43d83413734bb0e8", size = 78917 }
 wheels = [
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+    { url = "https://files.pythonhosted.org/packages/e6/1d/de31c4139603b3f43147dca571de7d1928bd23d5c674865342bd457ec419/nbclient-0.6.8-py3-none-any.whl", hash = "sha256:7cce8b415888539180535953f80ea2385cdbb444944cdeb73ffac1556fdbc228", size = 71848 },
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 [[package]]
@@ -1705,6 +1720,22 @@ wheels = [
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 ]
 
+[[package]]
+name = "nbmake"
+version = "1.5.4"
+source = { registry = "https://pypi.org/simple" }
+dependencies = [
+    { name = "ipykernel" },
+    { name = "nbclient" },
+    { name = "nbformat" },
+    { name = "pygments" },
+    { name = "pytest" },
+]
+sdist = { url = "https://files.pythonhosted.org/packages/db/25/46a5818e699dc72e708754a8b6cfe4383d714d6d2578a795e9393bd5a0a8/nbmake-1.5.4.tar.gz", hash = "sha256:56417fe80d50069671122955532df6e26369a23f68b9c6e2191ae9cfef19abb2", size = 11306 }
+wheels = [
+    { url = "https://files.pythonhosted.org/packages/fd/b6/4c8649228a418b0a4ea0577fcc921d9facef9f2b1d8669f2808f2cdf1429/nbmake-1.5.4-py3-none-any.whl", hash = "sha256:8e440a61a7d4ab303064aa86b8d2c088177c89960e2b4a0f91a768dc9f68382b", size = 12860 },
+]
+
 [[package]]
 name = "nest-asyncio"
 version = "1.6.0"
@@ -2072,6 +2103,21 @@ wheels = [
     { url = "https://files.pythonhosted.org/packages/be/ec/2eb3cd785efd67806c46c13a17339708ddc346cbb684eade7a6e6f79536a/pyparsing-3.2.0-py3-none-any.whl", hash = "sha256:93d9577b88da0bbea8cc8334ee8b918ed014968fd2ec383e868fb8afb1ccef84", size = 106921 },
 ]
 
+[[package]]
+name = "pytest"
+version = "8.3.3"
+source = { registry = "https://pypi.org/simple" }
+dependencies = [
+    { name = "colorama", marker = "sys_platform == 'win32'" },
+    { name = "iniconfig" },
+    { name = "packaging" },
+    { name = "pluggy" },
+]
+sdist = { url = "https://files.pythonhosted.org/packages/8b/6c/62bbd536103af674e227c41a8f3dcd022d591f6eed5facb5a0f31ee33bbc/pytest-8.3.3.tar.gz", hash = "sha256:70b98107bd648308a7952b06e6ca9a50bc660be218d53c257cc1fc94fda10181", size = 1442487 }
+wheels = [
+    { url = "https://files.pythonhosted.org/packages/6b/77/7440a06a8ead44c7757a64362dd22df5760f9b12dc5f11b6188cd2fc27a0/pytest-8.3.3-py3-none-any.whl", hash = "sha256:a6853c7375b2663155079443d2e45de913a911a11d669df02a50814944db57b2", size = 342341 },
+]
+
 [[package]]
 name = "python-constraint"
 version = "1.4.0"

From bd211d6e6544392bb5dada4578de57fc4ed3d562 Mon Sep 17 00:00:00 2001
From: Remco de Boer <29308176+redeboer@users.noreply.github.com>
Date: Mon, 28 Oct 2024 14:27:43 +0100
Subject: [PATCH 05/12] FIX: set `passenv` in jobs that have a different `base`

---
 pyproject.toml | 3 +++
 1 file changed, 3 insertions(+)

diff --git a/pyproject.toml b/pyproject.toml
index 337b90b..62ffedb 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -191,6 +191,7 @@ setenv =
 [testenv:docnb]
 base = doc
 description = {[testenv:doc]description} with cached notebook execution
+passenv = *
 setenv =
     {[testenv:doc]setenv}
     EXECUTE_NB = yes
@@ -198,6 +199,7 @@ setenv =
 [testenv:docnb-force]
 base = doc
 description = {[testenv:doc]description} with notebook execution (no cache)
+passenv = *
 setenv =
     {[testenv:doc]setenv}
     FORCE_EXECUTE_NB = yes
@@ -237,6 +239,7 @@ setenv =
 [testenv:docnblive]
 base = doclive
 description = {[testenv:doclive]description} with cached notebook execution
+passenv = *
 setenv =
     {[testenv:doclive]setenv}
     EXECUTE_NB = yes

From 804610f2504c02521828fcbf7cb5de6c989a7222 Mon Sep 17 00:00:00 2001
From: Remco de Boer <29308176+redeboer@users.noreply.github.com>
Date: Mon, 28 Oct 2024 14:27:43 +0100
Subject: [PATCH 06/12] MAINT: apply Ruff fixes

---
 docs/eta-pi-p/automated.ipynb  | 2 +-
 docs/lambda-k-pi/ampform.ipynb | 2 +-
 2 files changed, 2 insertions(+), 2 deletions(-)

diff --git a/docs/eta-pi-p/automated.ipynb b/docs/eta-pi-p/automated.ipynb
index 185d608..c012e5a 100644
--- a/docs/eta-pi-p/automated.ipynb
+++ b/docs/eta-pi-p/automated.ipynb
@@ -537,7 +537,7 @@
     "    color_id = 0\n",
     "    for recoil_id, ax in enumerate(axes):\n",
     "        decay_products = sorted({0, 1, 2} - {recoil_id})\n",
-    "        key = f\"m_{\"\".join(str(i) for i in decay_products)}\"\n",
+    "        key = f\"m_{''.join(str(i) for i in decay_products)}\"\n",
     "        bin_values, bin_edges = jax.numpy.histogram(\n",
     "            phsp[key].real,\n",
     "            bins=120,\n",
diff --git a/docs/lambda-k-pi/ampform.ipynb b/docs/lambda-k-pi/ampform.ipynb
index 56d18fa..9b59d11 100644
--- a/docs/lambda-k-pi/ampform.ipynb
+++ b/docs/lambda-k-pi/ampform.ipynb
@@ -705,7 +705,7 @@
     "    color_id = 0\n",
     "    for recoil_id, ax in enumerate(axes):\n",
     "        decay_products = sorted({0, 1, 2} - {recoil_id})\n",
-    "        key = f\"m_{\"\".join(str(i) for i in decay_products)}\"\n",
+    "        key = f\"m_{''.join(str(i) for i in decay_products)}\"\n",
     "        bin_values, bin_edges = jax.numpy.histogram(\n",
     "            phsp[key].real,\n",
     "            bins=120,\n",

From adfb8ea1d5c1eae3fd630b5821915c0c8cadcb0e Mon Sep 17 00:00:00 2001
From: Remco de Boer <29308176+redeboer@users.noreply.github.com>
Date: Mon, 28 Oct 2024 14:27:43 +0100
Subject: [PATCH 07/12] FIX: remove developer dependencies from extras

---
 .binder/postBuild        |  4 ++-
 .github/workflows/ci.yml |  2 +-
 .pre-commit-config.yaml  |  2 +-
 .readthedocs.yml         |  6 ++++-
 pyproject.toml           | 14 +++++-----
 uv.lock                  | 57 ++++++++++++++++++++++++----------------
 6 files changed, 50 insertions(+), 35 deletions(-)

diff --git a/.binder/postBuild b/.binder/postBuild
index 48d530c..00acf5d 100755
--- a/.binder/postBuild
+++ b/.binder/postBuild
@@ -3,9 +3,11 @@ set -ex
 curl -LsSf https://astral.sh/uv/install.sh | sh
 source $HOME/.cargo/env
 uv export \
-  --extra jupyter \
+  --group jupyter \
+  --no-dev \
   > requirements.txt
 uv pip install \
   --requirement requirements.txt \
   --system
+rm requirements.txt
 uv cache clean
diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
index 5d2ea1e..0ac6e36 100644
--- a/.github/workflows/ci.yml
+++ b/.github/workflows/ci.yml
@@ -28,7 +28,7 @@ on:
 
 jobs:
   doc:
-    uses: ComPWA/actions/.github/workflows/ci-docs.yml@v2
+    uses: ComPWA/actions/.github/workflows/ci-docs.yml@v2.1
     permissions:
       pages: write
       id-token: write
diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index 46f27f6..9921017 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -9,7 +9,7 @@ repos:
       - id: check-useless-excludes
 
   - repo: https://github.com/ComPWA/policy
-    rev: 0.5.3
+    rev: 0.5.5
     hooks:
       - id: check-dev-files
         args:
diff --git a/.readthedocs.yml b/.readthedocs.yml
index c4b0e32..eef19b7 100644
--- a/.readthedocs.yml
+++ b/.readthedocs.yml
@@ -10,7 +10,11 @@ build:
       pixi global install uv
     - |-
       export UV_LINK_MODE=copy
-      uv run --extra doc --locked --with tox \
+      uv run \
+        --group doc \
+        --locked \
+        --no-dev \
+        --with tox \
         tox -e doc
       mkdir -p $READTHEDOCS_OUTPUT
       mv docs/_build/html $READTHEDOCS_OUTPUT
diff --git a/pyproject.toml b/pyproject.toml
index 62ffedb..f2750b2 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -20,7 +20,6 @@ dependencies = [
     "python-lsp-ruff",
     "python-lsp-server",
     "qrules",
-    "ruff",
     "sphinx-autobuild",
     "sphinx-book-theme",
     "sphinx-comments",
@@ -35,12 +34,12 @@ readme = "README.md"
 requires-python = ">=3.12"
 version = "0.1.0"
 
-[project.optional-dependencies]
+[dependency-groups]
 dev = [
-    "gluex-nstar[doc]",
-    "gluex-nstar[jupyter]",
-    "gluex-nstar[sty]",
-    "gluex-nstar[test]",
+    "ruff",
+    {include-group = "doc"},
+    {include-group = "jupyter"},
+    {include-group = "test"},
 ]
 doc = [
     "sphinx-autobuild",
@@ -50,14 +49,13 @@ doc = [
 ]
 jupyter = [
     "jupyterlab",
-    "jupyterlab-code-formatter >=3.0.0",
+    "jupyterlab-code-formatter",
     "jupyterlab-git",
     "jupyterlab-lsp",
     "jupyterlab-myst",
     "python-lsp-ruff",
     "python-lsp-server[rope]",
 ]
-sty = ["ruff"]
 test = ["nbmake"]
 
 [tool.ruff]
diff --git a/uv.lock b/uv.lock
index 4f5f3f7..df0375f 100644
--- a/uv.lock
+++ b/uv.lock
@@ -570,7 +570,6 @@ dependencies = [
     { name = "python-lsp-ruff" },
     { name = "python-lsp-server" },
     { name = "qrules" },
-    { name = "ruff" },
     { name = "sphinx-autobuild" },
     { name = "sphinx-book-theme" },
     { name = "sphinx-comments" },
@@ -580,7 +579,7 @@ dependencies = [
     { name = "tensorwaves" },
 ]
 
-[package.optional-dependencies]
+[package.dependency-groups]
 dev = [
     { name = "jupyterlab" },
     { name = "jupyterlab-code-formatter" },
@@ -611,9 +610,6 @@ jupyter = [
     { name = "python-lsp-ruff" },
     { name = "python-lsp-server", extra = ["rope"] },
 ]
-sty = [
-    { name = "ruff" },
-]
 test = [
     { name = "nbmake" },
 ]
@@ -622,46 +618,61 @@ test = [
 requires-dist = [
     { name = "ampform" },
     { name = "ampform-dpd" },
-    { name = "gluex-nstar", extras = ["doc"], marker = "extra == 'dev'" },
-    { name = "gluex-nstar", extras = ["jupyter"], marker = "extra == 'dev'" },
-    { name = "gluex-nstar", extras = ["sty"], marker = "extra == 'dev'" },
-    { name = "gluex-nstar", extras = ["test"], marker = "extra == 'dev'" },
     { name = "graphviz" },
     { name = "ipympl" },
     { name = "ipywidgets" },
     { name = "jax" },
     { name = "jaxlib" },
-    { name = "jupyterlab", marker = "extra == 'jupyter'" },
-    { name = "jupyterlab-code-formatter", marker = "extra == 'jupyter'", specifier = ">=3.0.0" },
-    { name = "jupyterlab-git", marker = "extra == 'jupyter'" },
-    { name = "jupyterlab-lsp", marker = "extra == 'jupyter'" },
-    { name = "jupyterlab-myst", marker = "extra == 'jupyter'" },
     { name = "matplotlib" },
     { name = "myst-nb" },
-    { name = "nbmake", marker = "extra == 'test'" },
     { name = "numpy" },
     { name = "pandas" },
     { name = "phasespace" },
     { name = "python-lsp-ruff" },
-    { name = "python-lsp-ruff", marker = "extra == 'jupyter'" },
     { name = "python-lsp-server" },
-    { name = "python-lsp-server", extras = ["rope"], marker = "extra == 'jupyter'" },
     { name = "qrules" },
-    { name = "ruff" },
-    { name = "ruff", marker = "extra == 'sty'" },
     { name = "sphinx-autobuild" },
-    { name = "sphinx-autobuild", marker = "extra == 'doc'" },
     { name = "sphinx-book-theme" },
-    { name = "sphinx-book-theme", marker = "extra == 'doc'" },
     { name = "sphinx-comments" },
-    { name = "sphinx-comments", marker = "extra == 'doc'" },
     { name = "sphinx-copybutton" },
-    { name = "sphinx-copybutton", marker = "extra == 'doc'" },
     { name = "sympy" },
     { name = "tensorflow" },
     { name = "tensorwaves" },
 ]
 
+[package.metadata.dependency-groups]
+dev = [
+    { name = "jupyterlab" },
+    { name = "jupyterlab-code-formatter" },
+    { name = "jupyterlab-git" },
+    { name = "jupyterlab-lsp" },
+    { name = "jupyterlab-myst" },
+    { name = "nbmake" },
+    { name = "python-lsp-ruff" },
+    { name = "python-lsp-server", extras = ["rope"] },
+    { name = "ruff" },
+    { name = "sphinx-autobuild" },
+    { name = "sphinx-book-theme" },
+    { name = "sphinx-comments" },
+    { name = "sphinx-copybutton" },
+]
+doc = [
+    { name = "sphinx-autobuild" },
+    { name = "sphinx-book-theme" },
+    { name = "sphinx-comments" },
+    { name = "sphinx-copybutton" },
+]
+jupyter = [
+    { name = "jupyterlab" },
+    { name = "jupyterlab-code-formatter" },
+    { name = "jupyterlab-git" },
+    { name = "jupyterlab-lsp" },
+    { name = "jupyterlab-myst" },
+    { name = "python-lsp-ruff" },
+    { name = "python-lsp-server", extras = ["rope"] },
+]
+test = [{ name = "nbmake" }]
+
 [[package]]
 name = "google-pasta"
 version = "0.2.0"

From 87d26fb8fd7d2e0252e53d35008ae72c23a4d651 Mon Sep 17 00:00:00 2001
From: Remco de Boer <29308176+redeboer@users.noreply.github.com>
Date: Mon, 28 Oct 2024 14:27:44 +0100
Subject: [PATCH 08/12] FIX: clean up direct package dependencies

---
 pyproject.toml |  20 ++-------
 uv.lock        | 116 ++++++++++++-------------------------------------
 2 files changed, 30 insertions(+), 106 deletions(-)

diff --git a/pyproject.toml b/pyproject.toml
index f2750b2..9347577 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -7,26 +7,11 @@ authors = [{name = "Vitor Shen"}]
 dependencies = [
     "ampform",
     "ampform-dpd",
-    "graphviz",
     "ipympl",
     "ipywidgets",
-    "jax",
-    "jaxlib",
     "matplotlib",
-    "myst-nb",
-    "numpy",
-    "pandas",
-    "phasespace",
-    "python-lsp-ruff",
-    "python-lsp-server",
-    "qrules",
-    "sphinx-autobuild",
-    "sphinx-book-theme",
-    "sphinx-comments",
-    "sphinx-copybutton",
-    "sympy",
-    "tensorflow",
-    "tensorwaves",
+    "qrules[viz]",
+    "tensorwaves[jax,pwa]",
 ]
 license = {file = "LICENSE"}
 name = "gluex-nstar"
@@ -42,6 +27,7 @@ dev = [
     {include-group = "test"},
 ]
 doc = [
+    "myst-nb",
     "sphinx-autobuild",
     "sphinx-book-theme",
     "sphinx-comments",
diff --git a/uv.lock b/uv.lock
index df0375f..611f3fa 100644
--- a/uv.lock
+++ b/uv.lock
@@ -557,26 +557,11 @@ source = { editable = "." }
 dependencies = [
     { name = "ampform" },
     { name = "ampform-dpd" },
-    { name = "graphviz" },
     { name = "ipympl" },
     { name = "ipywidgets" },
-    { name = "jax" },
-    { name = "jaxlib" },
     { name = "matplotlib" },
-    { name = "myst-nb" },
-    { name = "numpy" },
-    { name = "pandas" },
-    { name = "phasespace" },
-    { name = "python-lsp-ruff" },
-    { name = "python-lsp-server" },
-    { name = "qrules" },
-    { name = "sphinx-autobuild" },
-    { name = "sphinx-book-theme" },
-    { name = "sphinx-comments" },
-    { name = "sphinx-copybutton" },
-    { name = "sympy" },
-    { name = "tensorflow" },
-    { name = "tensorwaves" },
+    { name = "qrules", extra = ["viz"] },
+    { name = "tensorwaves", extra = ["jax", "pwa"] },
 ]
 
 [package.dependency-groups]
@@ -586,6 +571,7 @@ dev = [
     { name = "jupyterlab-git" },
     { name = "jupyterlab-lsp" },
     { name = "jupyterlab-myst" },
+    { name = "myst-nb" },
     { name = "nbmake" },
     { name = "python-lsp-ruff" },
     { name = "python-lsp-server", extra = ["rope"] },
@@ -596,6 +582,7 @@ dev = [
     { name = "sphinx-copybutton" },
 ]
 doc = [
+    { name = "myst-nb" },
     { name = "sphinx-autobuild" },
     { name = "sphinx-book-theme" },
     { name = "sphinx-comments" },
@@ -618,26 +605,11 @@ test = [
 requires-dist = [
     { name = "ampform" },
     { name = "ampform-dpd" },
-    { name = "graphviz" },
     { name = "ipympl" },
     { name = "ipywidgets" },
-    { name = "jax" },
-    { name = "jaxlib" },
     { name = "matplotlib" },
-    { name = "myst-nb" },
-    { name = "numpy" },
-    { name = "pandas" },
-    { name = "phasespace" },
-    { name = "python-lsp-ruff" },
-    { name = "python-lsp-server" },
-    { name = "qrules" },
-    { name = "sphinx-autobuild" },
-    { name = "sphinx-book-theme" },
-    { name = "sphinx-comments" },
-    { name = "sphinx-copybutton" },
-    { name = "sympy" },
-    { name = "tensorflow" },
-    { name = "tensorwaves" },
+    { name = "qrules", extras = ["viz"] },
+    { name = "tensorwaves", extras = ["jax", "pwa"] },
 ]
 
 [package.metadata.dependency-groups]
@@ -647,6 +619,7 @@ dev = [
     { name = "jupyterlab-git" },
     { name = "jupyterlab-lsp" },
     { name = "jupyterlab-myst" },
+    { name = "myst-nb" },
     { name = "nbmake" },
     { name = "python-lsp-ruff" },
     { name = "python-lsp-server", extras = ["rope"] },
@@ -657,6 +630,7 @@ dev = [
     { name = "sphinx-copybutton" },
 ]
 doc = [
+    { name = "myst-nb" },
     { name = "sphinx-autobuild" },
     { name = "sphinx-book-theme" },
     { name = "sphinx-comments" },
@@ -1854,40 +1828,6 @@ wheels = [
     { url = "https://files.pythonhosted.org/packages/08/aa/cc0199a5f0ad350994d660967a8efb233fe0416e4639146c089643407ce6/packaging-24.1-py3-none-any.whl", hash = "sha256:5b8f2217dbdbd2f7f384c41c628544e6d52f2d0f53c6d0c3ea61aa5d1d7ff124", size = 53985 },
 ]
 
-[[package]]
-name = "pandas"
-version = "2.2.3"
-source = { registry = "https://pypi.org/simple" }
-dependencies = [
-    { name = "numpy" },
-    { name = "python-dateutil" },
-    { name = "pytz" },
-    { name = "tzdata" },
-]
-sdist = { url = "https://files.pythonhosted.org/packages/9c/d6/9f8431bacc2e19dca897724cd097b1bb224a6ad5433784a44b587c7c13af/pandas-2.2.3.tar.gz", hash = "sha256:4f18ba62b61d7e192368b84517265a99b4d7ee8912f8708660fb4a366cc82667", size = 4399213 }
-wheels = [
-    { url = "https://files.pythonhosted.org/packages/17/a3/fb2734118db0af37ea7433f57f722c0a56687e14b14690edff0cdb4b7e58/pandas-2.2.3-cp312-cp312-macosx_10_9_x86_64.whl", hash = "sha256:b1d432e8d08679a40e2a6d8b2f9770a5c21793a6f9f47fdd52c5ce1948a5a8a9", size = 12529893 },
-    { url = "https://files.pythonhosted.org/packages/e1/0c/ad295fd74bfac85358fd579e271cded3ac969de81f62dd0142c426b9da91/pandas-2.2.3-cp312-cp312-macosx_11_0_arm64.whl", hash = "sha256:a5a1595fe639f5988ba6a8e5bc9649af3baf26df3998a0abe56c02609392e0a4", size = 11363475 },
-    { url = "https://files.pythonhosted.org/packages/c6/2a/4bba3f03f7d07207481fed47f5b35f556c7441acddc368ec43d6643c5777/pandas-2.2.3-cp312-cp312-manylinux2014_aarch64.manylinux_2_17_aarch64.whl", hash = "sha256:5de54125a92bb4d1c051c0659e6fcb75256bf799a732a87184e5ea503965bce3", size = 15188645 },
-    { url = "https://files.pythonhosted.org/packages/38/f8/d8fddee9ed0d0c0f4a2132c1dfcf0e3e53265055da8df952a53e7eaf178c/pandas-2.2.3-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:fffb8ae78d8af97f849404f21411c95062db1496aeb3e56f146f0355c9989319", size = 12739445 },
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-    { url = "https://files.pythonhosted.org/packages/ab/5f/b38085618b950b79d2d9164a711c52b10aefc0ae6833b96f626b7021b2ed/pandas-2.2.3-cp313-cp313t-musllinux_1_2_x86_64.whl", hash = "sha256:ad5b65698ab28ed8d7f18790a0dc58005c7629f227be9ecc1072aa74c0c1d43a", size = 13098436 },
-]
-
 [[package]]
 name = "pandocfilters"
 version = "1.5.1"
@@ -1945,6 +1885,12 @@ wheels = [
     { url = "https://files.pythonhosted.org/packages/35/25/17a75fc993d1306df3e8978c896a6ecfadfa04153a507ab282778664b710/phasespace-1.10.3-py2.py3-none-any.whl", hash = "sha256:f6ed8d3a1d7fa4c8373de0cdd54ca3176ef018be3ac7f36b4f514bc4b6680b70", size = 40092 },
 ]
 
+[package.optional-dependencies]
+tf = [
+    { name = "tensorflow" },
+    { name = "tensorflow-probability" },
+]
+
 [[package]]
 name = "pillow"
 version = "11.0.0"
@@ -2221,15 +2167,6 @@ global = [
     { name = "platformdirs" },
 ]
 
-[[package]]
-name = "pytz"
-version = "2024.2"
-source = { registry = "https://pypi.org/simple" }
-sdist = { url = "https://files.pythonhosted.org/packages/3a/31/3c70bf7603cc2dca0f19bdc53b4537a797747a58875b552c8c413d963a3f/pytz-2024.2.tar.gz", hash = "sha256:2aa355083c50a0f93fa581709deac0c9ad65cca8a9e9beac660adcbd493c798a", size = 319692 }
-wheels = [
-    { url = "https://files.pythonhosted.org/packages/11/c3/005fcca25ce078d2cc29fd559379817424e94885510568bc1bc53d7d5846/pytz-2024.2-py2.py3-none-any.whl", hash = "sha256:31c7c1817eb7fae7ca4b8c7ee50c72f93aa2dd863de768e1ef4245d426aa0725", size = 508002 },
-]
-
 [[package]]
 name = "pywin32"
 version = "308"
@@ -2340,6 +2277,11 @@ wheels = [
     { url = "https://files.pythonhosted.org/packages/49/8f/9a3cfe2cf810408afba00365c819ed62f635ef126b7c16cc74243b0d44b4/qrules-0.10.3-py3-none-any.whl", hash = "sha256:19fb1818794830184881476bd5f3f4f64aa738ced14afde4ab7ae69598b74071", size = 79783 },
 ]
 
+[package.optional-dependencies]
+viz = [
+    { name = "graphviz" },
+]
+
 [[package]]
 name = "referencing"
 version = "0.35.1"
@@ -2877,6 +2819,11 @@ jax = [
     { name = "jax" },
     { name = "jaxlib" },
 ]
+pwa = [
+    { name = "ampform" },
+    { name = "phasespace", extra = ["tf"] },
+    { name = "tensorflow" },
+]
 
 [[package]]
 name = "termcolor"
@@ -2933,14 +2880,14 @@ wheels = [
 
 [[package]]
 name = "tqdm"
-version = "4.66.5"
+version = "4.66.6"
 source = { registry = "https://pypi.org/simple" }
 dependencies = [
     { name = "colorama", marker = "platform_system == 'Windows'" },
 ]
-sdist = { url = "https://files.pythonhosted.org/packages/58/83/6ba9844a41128c62e810fddddd72473201f3eacde02046066142a2d96cc5/tqdm-4.66.5.tar.gz", hash = "sha256:e1020aef2e5096702d8a025ac7d16b1577279c9d63f8375b63083e9a5f0fcbad", size = 169504 }
+sdist = { url = "https://files.pythonhosted.org/packages/e9/34/bef135b27fe1864993a5284ad001157ee9b5538e859ac90f5b0e8cc8c9ec/tqdm-4.66.6.tar.gz", hash = "sha256:4bdd694238bef1485ce839d67967ab50af8f9272aab687c0d7702a01da0be090", size = 169533 }
 wheels = [
-    { url = "https://files.pythonhosted.org/packages/48/5d/acf5905c36149bbaec41ccf7f2b68814647347b72075ac0b1fe3022fdc73/tqdm-4.66.5-py3-none-any.whl", hash = "sha256:90279a3770753eafc9194a0364852159802111925aa30eb3f9d85b0e805ac7cd", size = 78351 },
+    { url = "https://files.pythonhosted.org/packages/41/73/02342de9c2d20922115f787e101527b831c0cffd2105c946c4a4826bcfd4/tqdm-4.66.6-py3-none-any.whl", hash = "sha256:223e8b5359c2efc4b30555531f09e9f2f3589bcd7fdd389271191031b49b7a63", size = 78326 },
 ]
 
 [[package]]
@@ -2970,15 +2917,6 @@ wheels = [
     { url = "https://files.pythonhosted.org/packages/26/9f/ad63fc0248c5379346306f8668cda6e2e2e9c95e01216d2b8ffd9ff037d0/typing_extensions-4.12.2-py3-none-any.whl", hash = "sha256:04e5ca0351e0f3f85c6853954072df659d0d13fac324d0072316b67d7794700d", size = 37438 },
 ]
 
-[[package]]
-name = "tzdata"
-version = "2024.2"
-source = { registry = "https://pypi.org/simple" }
-sdist = { url = "https://files.pythonhosted.org/packages/e1/34/943888654477a574a86a98e9896bae89c7aa15078ec29f490fef2f1e5384/tzdata-2024.2.tar.gz", hash = "sha256:7d85cc416e9382e69095b7bdf4afd9e3880418a2413feec7069d533d6b4e31cc", size = 193282 }
-wheels = [
-    { url = "https://files.pythonhosted.org/packages/a6/ab/7e5f53c3b9d14972843a647d8d7a853969a58aecc7559cb3267302c94774/tzdata-2024.2-py2.py3-none-any.whl", hash = "sha256:a48093786cdcde33cad18c2555e8532f34422074448fbc874186f0abd79565cd", size = 346586 },
-]
-
 [[package]]
 name = "ujson"
 version = "5.10.0"

From ef9330000f4563c2fe8db4480528984552cbaeab Mon Sep 17 00:00:00 2001
From: Remco de Boer <29308176+redeboer@users.noreply.github.com>
Date: Mon, 28 Oct 2024 14:27:44 +0100
Subject: [PATCH 09/12] BREAK: convert package dependencies to notebook
 dependencies

---
 .binder/postBuild |  1 +
 pyproject.toml    | 20 +++++++------
 uv.lock           | 74 +++++++++++++++++++++++++++++++++++++----------
 3 files changed, 70 insertions(+), 25 deletions(-)

diff --git a/.binder/postBuild b/.binder/postBuild
index 00acf5d..06472a5 100755
--- a/.binder/postBuild
+++ b/.binder/postBuild
@@ -4,6 +4,7 @@ curl -LsSf https://astral.sh/uv/install.sh | sh
 source $HOME/.cargo/env
 uv export \
   --group jupyter \
+  --group notebooks \
   --no-dev \
   > requirements.txt
 uv pip install \
diff --git a/pyproject.toml b/pyproject.toml
index 9347577..8147903 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -4,15 +4,6 @@ requires = ["setuptools"]
 
 [project]
 authors = [{name = "Vitor Shen"}]
-dependencies = [
-    "ampform",
-    "ampform-dpd",
-    "ipympl",
-    "ipywidgets",
-    "matplotlib",
-    "qrules[viz]",
-    "tensorwaves[jax,pwa]",
-]
 license = {file = "LICENSE"}
 name = "gluex-nstar"
 readme = "README.md"
@@ -32,6 +23,7 @@ doc = [
     "sphinx-book-theme",
     "sphinx-comments",
     "sphinx-copybutton",
+    {include-group = "notebooks"},
 ]
 jupyter = [
     "jupyterlab",
@@ -41,6 +33,16 @@ jupyter = [
     "jupyterlab-myst",
     "python-lsp-ruff",
     "python-lsp-server[rope]",
+    {include-group = "notebooks"},
+]
+notebooks = [
+    "ampform",
+    "ampform-dpd",
+    "ipympl",
+    "ipywidgets",
+    "matplotlib",
+    "qrules[viz]",
+    "tensorwaves[jax,pwa]",
 ]
 test = ["nbmake"]
 
diff --git a/uv.lock b/uv.lock
index 611f3fa..7399e49 100644
--- a/uv.lock
+++ b/uv.lock
@@ -554,96 +554,138 @@ wheels = [
 name = "gluex-nstar"
 version = "0.1.0"
 source = { editable = "." }
-dependencies = [
+
+[package.dependency-groups]
+dev = [
     { name = "ampform" },
     { name = "ampform-dpd" },
     { name = "ipympl" },
     { name = "ipywidgets" },
-    { name = "matplotlib" },
-    { name = "qrules", extra = ["viz"] },
-    { name = "tensorwaves", extra = ["jax", "pwa"] },
-]
-
-[package.dependency-groups]
-dev = [
     { name = "jupyterlab" },
     { name = "jupyterlab-code-formatter" },
     { name = "jupyterlab-git" },
     { name = "jupyterlab-lsp" },
     { name = "jupyterlab-myst" },
+    { name = "matplotlib" },
     { name = "myst-nb" },
     { name = "nbmake" },
     { name = "python-lsp-ruff" },
     { name = "python-lsp-server", extra = ["rope"] },
+    { name = "qrules", extra = ["viz"] },
     { name = "ruff" },
     { name = "sphinx-autobuild" },
     { name = "sphinx-book-theme" },
     { name = "sphinx-comments" },
     { name = "sphinx-copybutton" },
+    { name = "tensorwaves", extra = ["jax", "pwa"] },
 ]
 doc = [
+    { name = "ampform" },
+    { name = "ampform-dpd" },
+    { name = "ipympl" },
+    { name = "ipywidgets" },
+    { name = "matplotlib" },
     { name = "myst-nb" },
+    { name = "qrules", extra = ["viz"] },
     { name = "sphinx-autobuild" },
     { name = "sphinx-book-theme" },
     { name = "sphinx-comments" },
     { name = "sphinx-copybutton" },
+    { name = "tensorwaves", extra = ["jax", "pwa"] },
 ]
 jupyter = [
+    { name = "ampform" },
+    { name = "ampform-dpd" },
+    { name = "ipympl" },
+    { name = "ipywidgets" },
     { name = "jupyterlab" },
     { name = "jupyterlab-code-formatter" },
     { name = "jupyterlab-git" },
     { name = "jupyterlab-lsp" },
     { name = "jupyterlab-myst" },
+    { name = "matplotlib" },
     { name = "python-lsp-ruff" },
     { name = "python-lsp-server", extra = ["rope"] },
+    { name = "qrules", extra = ["viz"] },
+    { name = "tensorwaves", extra = ["jax", "pwa"] },
 ]
-test = [
-    { name = "nbmake" },
-]
-
-[package.metadata]
-requires-dist = [
+notebooks = [
     { name = "ampform" },
     { name = "ampform-dpd" },
     { name = "ipympl" },
     { name = "ipywidgets" },
     { name = "matplotlib" },
-    { name = "qrules", extras = ["viz"] },
-    { name = "tensorwaves", extras = ["jax", "pwa"] },
+    { name = "qrules", extra = ["viz"] },
+    { name = "tensorwaves", extra = ["jax", "pwa"] },
+]
+test = [
+    { name = "nbmake" },
 ]
 
+[package.metadata]
+
 [package.metadata.dependency-groups]
 dev = [
+    { name = "ampform" },
+    { name = "ampform-dpd" },
+    { name = "ipympl" },
+    { name = "ipywidgets" },
     { name = "jupyterlab" },
     { name = "jupyterlab-code-formatter" },
     { name = "jupyterlab-git" },
     { name = "jupyterlab-lsp" },
     { name = "jupyterlab-myst" },
+    { name = "matplotlib" },
     { name = "myst-nb" },
     { name = "nbmake" },
     { name = "python-lsp-ruff" },
     { name = "python-lsp-server", extras = ["rope"] },
+    { name = "qrules", extras = ["viz"] },
     { name = "ruff" },
     { name = "sphinx-autobuild" },
     { name = "sphinx-book-theme" },
     { name = "sphinx-comments" },
     { name = "sphinx-copybutton" },
+    { name = "tensorwaves", extras = ["jax", "pwa"] },
 ]
 doc = [
+    { name = "ampform" },
+    { name = "ampform-dpd" },
+    { name = "ipympl" },
+    { name = "ipywidgets" },
+    { name = "matplotlib" },
     { name = "myst-nb" },
+    { name = "qrules", extras = ["viz"] },
     { name = "sphinx-autobuild" },
     { name = "sphinx-book-theme" },
     { name = "sphinx-comments" },
     { name = "sphinx-copybutton" },
+    { name = "tensorwaves", extras = ["jax", "pwa"] },
 ]
 jupyter = [
+    { name = "ampform" },
+    { name = "ampform-dpd" },
+    { name = "ipympl" },
+    { name = "ipywidgets" },
     { name = "jupyterlab" },
     { name = "jupyterlab-code-formatter" },
     { name = "jupyterlab-git" },
     { name = "jupyterlab-lsp" },
     { name = "jupyterlab-myst" },
+    { name = "matplotlib" },
     { name = "python-lsp-ruff" },
     { name = "python-lsp-server", extras = ["rope"] },
+    { name = "qrules", extras = ["viz"] },
+    { name = "tensorwaves", extras = ["jax", "pwa"] },
+]
+notebooks = [
+    { name = "ampform" },
+    { name = "ampform-dpd" },
+    { name = "ipympl" },
+    { name = "ipywidgets" },
+    { name = "matplotlib" },
+    { name = "qrules", extras = ["viz"] },
+    { name = "tensorwaves", extras = ["jax", "pwa"] },
 ]
 test = [{ name = "nbmake" }]
 

From c64068b64351f7dc2417c24608b3290e1dfdd930 Mon Sep 17 00:00:00 2001
From: Remco de Boer <29308176+redeboer@users.noreply.github.com>
Date: Mon, 28 Oct 2024 14:27:44 +0100
Subject: [PATCH 10/12] DX: move `sphinx-autobuild` to `dev dependencies

---
 pyproject.toml | 2 +-
 uv.lock        | 2 --
 2 files changed, 1 insertion(+), 3 deletions(-)

diff --git a/pyproject.toml b/pyproject.toml
index 8147903..a12851a 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -13,13 +13,13 @@ version = "0.1.0"
 [dependency-groups]
 dev = [
     "ruff",
+    "sphinx-autobuild",
     {include-group = "doc"},
     {include-group = "jupyter"},
     {include-group = "test"},
 ]
 doc = [
     "myst-nb",
-    "sphinx-autobuild",
     "sphinx-book-theme",
     "sphinx-comments",
     "sphinx-copybutton",
diff --git a/uv.lock b/uv.lock
index 7399e49..15790d7 100644
--- a/uv.lock
+++ b/uv.lock
@@ -587,7 +587,6 @@ doc = [
     { name = "matplotlib" },
     { name = "myst-nb" },
     { name = "qrules", extra = ["viz"] },
-    { name = "sphinx-autobuild" },
     { name = "sphinx-book-theme" },
     { name = "sphinx-comments" },
     { name = "sphinx-copybutton" },
@@ -656,7 +655,6 @@ doc = [
     { name = "matplotlib" },
     { name = "myst-nb" },
     { name = "qrules", extras = ["viz"] },
-    { name = "sphinx-autobuild" },
     { name = "sphinx-book-theme" },
     { name = "sphinx-comments" },
     { name = "sphinx-copybutton" },

From 46b3a99a309ab87375b8de04d615fd3b5173fd4f Mon Sep 17 00:00:00 2001
From: Remco de Boer <29308176+redeboer@users.noreply.github.com>
Date: Mon, 28 Oct 2024 14:27:45 +0100
Subject: [PATCH 11/12] FIX: install `notebooks` group in `test` group

---
 pyproject.toml |  5 ++++-
 uv.lock        | 18 +++++++++++++++++-
 2 files changed, 21 insertions(+), 2 deletions(-)

diff --git a/pyproject.toml b/pyproject.toml
index a12851a..9568d73 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -44,7 +44,10 @@ notebooks = [
     "qrules[viz]",
     "tensorwaves[jax,pwa]",
 ]
-test = ["nbmake"]
+test = [
+    "nbmake",
+    {include-group = "notebooks"},
+]
 
 [tool.ruff]
 extend-include = ["*.ipynb"]
diff --git a/uv.lock b/uv.lock
index 15790d7..f15cfe2 100644
--- a/uv.lock
+++ b/uv.lock
@@ -618,7 +618,14 @@ notebooks = [
     { name = "tensorwaves", extra = ["jax", "pwa"] },
 ]
 test = [
+    { name = "ampform" },
+    { name = "ampform-dpd" },
+    { name = "ipympl" },
+    { name = "ipywidgets" },
+    { name = "matplotlib" },
     { name = "nbmake" },
+    { name = "qrules", extra = ["viz"] },
+    { name = "tensorwaves", extra = ["jax", "pwa"] },
 ]
 
 [package.metadata]
@@ -685,7 +692,16 @@ notebooks = [
     { name = "qrules", extras = ["viz"] },
     { name = "tensorwaves", extras = ["jax", "pwa"] },
 ]
-test = [{ name = "nbmake" }]
+test = [
+    { name = "ampform" },
+    { name = "ampform-dpd" },
+    { name = "ipympl" },
+    { name = "ipywidgets" },
+    { name = "matplotlib" },
+    { name = "nbmake" },
+    { name = "qrules", extras = ["viz"] },
+    { name = "tensorwaves", extras = ["jax", "pwa"] },
+]
 
 [[package]]
 name = "google-pasta"

From c04828292528524283cf4d25e34b1ef970be20e4 Mon Sep 17 00:00:00 2001
From: Remco de Boer <29308176+redeboer@users.noreply.github.com>
Date: Mon, 28 Oct 2024 14:27:45 +0100
Subject: [PATCH 12/12] MAINT: move `pre-commit` `--all-files` flag

---
 pyproject.toml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/pyproject.toml b/pyproject.toml
index 9568d73..f80d7c5 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -256,6 +256,6 @@ description = Run all notebooks with pytest
 allowlist_externals =
     pre-commit
 commands =
-    pre-commit run {posargs} --all-files
+    pre-commit run --all-files {posargs}
 description = Perform all linting, formatting, and spelling checks
 """